bluuebunny/crossref_metadata_2025_split huggingface dataset:
Hot Jupiter secondary eclipses measured by Kepler
Authors: Demory Brice-Olivier , Seager Sara 
Published: November 2011

AbstractHot-Jupiters are known to be dark in visible bandpasses, mainly because of the alkali metal absorption lines and TiO and VO molecular absorption bands. The outstanding quality of the Kepler mission photometry allows a detection (or non-detection upper limits on) giant planet secondary eclipses at visible wavelengths. We present such measurements on published planets from Kepler Q1 data. We then explore how to disentangle between the planetary thermal emission and the reflected light components that can both contribute to the detected signal in the Kepler bandpass. We finally mention how different physical processes can lead to a wide variety of hot-Jupiters albedos.
Search and characterization of T-type planetary mass candidates in the σ Orionis cluster
Authors: Ramírez Karla Peña , Zapatero Osorio Maria R. , Béjar Victor J.S. 
Published: November 2011

AbstractWe present new photometric and astrometric data available for S Ori 70 and 73, the two T-type planetary-mass member candidates in the σ Orionis cluster (~3 ± 2 Myr, d~360 pc). S Ori 70 (J ~ 19.9 mag) has a spectral type of T5.5 ± 1.0 measured from published near-infrared spectra, while no spectroscopic data are available for S Ori 73 (J ~ 21 mag). We estimate the spectral type of S Ori 73 by using J, H, and CH4off (λc=1.575 μm, Δλ=0.112 μm) photometry and comparing the H-CH4off index of S Ori 73 with the colors of field stars and brown dwarfs of spectral types in the range F to late T. The locations of S Ori 70 and 73 in the J-H vs H-CH4off color-color diagram are consistent with spectral types T8 ± 1 and T4 ± 1, respectively. Proper motion measurements of the two sources are larger than the motion of the central σ Ori star, making their cluster membership somehow uncertain.
Two bodies with high eccentricity around the cataclysmic variable QS Vir
Authors: Almeida Leonardo A. , Jablonski Francisco 
Published: November 2011

AbstractQS Vir is an eclipsing cataclysmic variable with 3.618 hrs orbital period. This system has the interesting characteristics that it does not show mass transfer between the components through the L1 Lagrangian point and shows a complex orbital period variation history. Qian et al. (2010) associated the orbital period variations to the presence of a giant planet in the system plus angular momentum loss via magnetic braking. Parsons et al. (2010) obtained new eclipse timings and observed that the orbital period variations associated to a hypothetical giant planet disagree with their measurements and concluded that the decrease in orbital period is part of a cyclic variation with period ~16 yrs. In this work, we present 28 new eclipse timings of QS Vir and suggest that the orbital period variations can be explained by a model with two circumbinary bodies. The best fitting gives the lower limit to the masses M1 sin(i) ~ 0.0086 M⊙ and M2 sin(i) ~ 0.054 M⊙; orbital periods P1 ~ 14.4 yrs and P2 ~ 16.99 yrs, and eccentricities e1 ~ 0.62 and e2~0.92 for the two external bodies. Under the assumption of coplanarity among the two external bodies and the inner binary, we obtain a giant planet with ~0.009 M⊙ and a brown dwarf with ~ 0.056 M⊙ around the eclipsing binary QS Vir.
Evolution of planetary systems in dissipating gas disks
Authors: Matsumura Soko , Thommes Edward W. , Chatterjee Sourav , Rasio Frederic A. 
Published: November 2011

AbstractIn a recently published paper Matsumura et al. (2010) (hereafter M10), we have studied the evolution of three-planet systems in dissipating gas disks by using a hybrid N-body and one-dimensional gas disk evolution code. In this article, we highlight some results which are only briefly mentioned in M10.
Tidal evolution of a close-in planet with a more massive outer companion
Authors: Rodríguez Adrian , Ferraz-Mello Sylvio , Michtchenko Tatiana A. , Beaugé Cristian , Miloni Octavio 
Published: November 2011

AbstractWe investigate the motion of a two-planet coplanar system under the combined effects of mutual interaction and tidal dissipation. The secular behavior of the system is analyzed using two different approaches, restricting to the case of a more massive outer planet. First, we solve the exact equations of motion through the numerical simulation of the system evolution. We also compute the stationary solutions of the mean equations of motion based on a Hamiltonian formalism. An application to the real system CoRoT-7 is investigated.
3D MHD simulations of planet migration in turbulent stratified disks
Authors: Uribe Ana , Klahr Hubert , Flock Mario , Henning Thomas 
Published: November 2011

AbstractWe performed 3D MHD numerical simulations of planet migration in stratified disks using the Godunov code PLUTO (Mignone et al. 2007). The disk is invaded by turbulence generated by the magnetorotational instability (MRI). We study the migration for planets with different mass to primary mass ratio. The migration of the low-mass planet (q=Mp/Ms=10−5) is dominated by random fluctuations in the torque and there is no defined direction of migration on timescales of 100 orbits. The intermediate-mass planet (q=Mp/Ms=10−4) can experience systematic outwards migration that was sustained for the times we were able to simulate.
Planetesimal and protoplanet dynamics in a turbulent protoplanetary disk
Authors: Yang Chao-Chin , Mac Low Mordecai-Mark , Menou Kristen 
Published: November 2011

AbstractDue to the gravitational influence of density fluctuations driven by magneto-rotational instability in the gas disk, planetesimals and protoplanets undergo diffusive radial migration as well as changes of other orbital properties. The magnitude of the effect on particle orbits has important consequences for planet formation scenarios. We use the local-shearing-box approximation to simulate an ideal, isothermal, magnetized gas disk with vertical density stratification and simultaneously evolve numerous massless particles moving under the gravity of the gas and the host star. Although the results converge with resolution for fixed box dimensions, we find there exists no convergence of the response of the particles to the gravity of the gas against the horizontal box size, up to 16 disk scale heights. This lack of convergence indicate that caution should be exercised when interpreting local-shearing-box models involving gravitational physics of magneto-rotational turbulence.
CARMENES: Calar Alto high-Resolution search for M dwarfs with Exo-earths with Near-infrared and optical Echelle Spectrographs
Authors: Quirrenbach Andreas , Amado Pedro J. , Caballero José A. , Mandel Holger , Mundt Reinhard , Reiners Ansgar , Ribas Ignasi , Sánchez Carrasco Miguel A. , Seifert Walter ,   the CARMENES Consortium
Published: November 2011

AbstractCARMENES (Calar Alto high-Resolution search for M dwarfs with Exo-earths with Near-infrared and optical Echelle Spectrographs) is a next-generation instrument for the 3.5 m telescope at the Calar Alto Observatory. CARMENES will conduct a five-year exoplanet survey targeting ~300 M stars. The CARMENES instrument consists of two separate fiber-fed spectrographs covering the wavelength range from 0.52 to 1.7 μm at a spectral resolution of R = 85,000. The spectrographs are housed in a temperature-stabilized environment in vacuum tanks, to enable a 1 m/s radial velocity precision employing a simultaneous emission-line calibration.
The LCOGT Network
Authors: Shporer Avi , Brown Tim , Lister Tim , Street Rachel , Tsapras Yiannis , Bianco Federica , Fulton Benjamin , Howell Andy 
Published: November 2011

AbstractMotivated by the increasing need for observational resources for the study of time varying astronomy, the Las Cumbres Observatory Global Telescope (LCOGT) is a private foundation, whose goal is to build a global network of robotic telescopes for scientific research and education. Once completed, the network will become a unique tool, capable of continuous monitoring from both the Northern and Southern Hemispheres. The network currently includes 2 × 2.0 m telescopes, already making an impact in the field of exoplanet research. In the next few years they will be joined by at least 12 × 1.0 m and 20 × 0.4 m telescopes. The increasing amount of LCOGT observational resources in the coming years will be of great service to the astronomical community in general, and the exoplanet community in particular.
Wavelet-based image fusion in multi-view three-dimensional microscopy
Authors: Rubio-Guivernau Jose L. , Gurchenkov Vasily , Luengo-Oroz Miguel A. , Duloquin Louise , Bourgine Paul , Santos Andres , Peyrieras Nadine , Ledesma-Carbayo Maria J. 
Published: November 2011

Abstract
Motivation: Multi-view microscopy techniques such as Light-Sheet Fluorescence Microscopy (LSFM) are powerful tools for 3D + time studies of live embryos in developmental biology. The sample is imaged from several points of view, acquiring a set of 3D views that are then combined or fused in order to overcome their individual limitations. Views fusion is still an open problem despite recent contributions in the field.
Results: We developed a wavelet-based multi-view fusion method that, due to wavelet decomposition properties, is able to combine the complementary directional information from all available views into a single volume. Our method is demonstrated on LSFM acquisitions from live sea urchin and zebrafish embryos. The fusion results show improved overall contrast and details when compared with any of the acquired volumes. The proposed method does not need knowledge of the system's point spread function (PSF) and performs better than other existing PSF independent fusion methods.
Availability and Implementation: The described method was implemented in Matlab (The Mathworks, Inc., USA) and a graphic user interface was developed in Java.
The software, together with two sample datasets, is available at http://www.die.upm.es/im/software/SPIMFusionGUI.zip
A public release, free of charge for non-commercial use, is planned after the publication of this article.
Contact: jlrubio@die.upm.es; nadine.peyrieras@inaf.cnrs-gif.fr; mledesma@die.upm.es
Supplementary Information: Supplementary data are available at Bioinformatics online.
Decompositions of large-scale biological systems based on dynamical properties
Authors: Soranzo Nicola , Ramezani Fahimeh , Iacono Giovanni , Altafini Claudio 
Published: November 2011

Abstract
Motivation: Given a large-scale biological network represented as an influence graph, in this article we investigate possible decompositions of the network aimed at highlighting specific dynamical properties.
Results: The first decomposition we study consists in finding a maximal directed acyclic subgraph of the network, which dynamically corresponds to searching for a maximal open-loop subsystem of the given system. Another dynamical property investigated is strong monotonicity. We propose two methods to deal with this property, both aimed at decomposing the system into strongly monotone subsystems, but with different structural characteristics: one method tends to produce a single large strongly monotone component, while the other typically generates a set of smaller disjoint strongly monotone subsystems.
Availability: Original heuristics for the methods investigated are described in the article.
Contact: altafini@sissa.it
Comparison of the shell structure of two tropical Thecosomata (Creseis acicula and Diacavolinia longirostris) from 1963 to 2009: potential implications of declining aragonite saturation
Authors: Roger Liza M. , Richardson Anthony J. , McKinnon A. David , Knott Brenton , Matear Richard , Scadding Cameron 
Published: November 2011

Abstract
Roger, L. M., Richardson, A. J., McKinnon, A. D., Knott, B., Matear, R., and Scadding, C. 2012. Comparison of the shell structure of two tropical Thecosomata (Creseis acicula and Diacavolinia longirostris) from 1963 to 2009: potential implications of declining aragonite saturation. – ICES Journal of Marine Science, 69: 465–474. Thecosomata (shelled pteropod molluscs) are calcifiers that play an important role in the ocean carbonate cycle. Ocean acidification as a result of the uptake of CO2 affects pteropods by increasing dissolution rates of their aragonite skeletons. Two species of pteropod found in Australian tropical waters were studied, Creseis acicula and Diacavolinia longirostris. To assess the changes in their aragonite shells, shell morphology, growth patterns, structure, size, and porosity are described for both species, from material collected at seven sites between the 1960s and the 2000s. Shell characteristics were used to explore variations over time potentially related to ocean acidification. The aragonite saturation level (Ωarag) of surface waters was hindcast and a decline equivalent to −10% (average of the seven sites) was found. Simultaneously, variations in shell thickness were recorded (C. acicula by −4.43 µm, D. longirostris by −5.37 µm) over the study period along with a significant increase in shell porosity (C. acicula: +1.43%, D. longirostris: +8.69%). The work, although not conclusive, does suggest that pteropods off Northern Australia may have been influenced by the decline in Ωarag over the past few decades. Such adverse effects could ultimately affect thecosome survival and that of their predators.
First Report of Root Rot Caused by Sclerotium rolfsii on Daucus carota var. sativa in Southern Korea
Authors: Kwon J.-H. , Lee Y. H. , Shim H.-S. , Kim J. 
Published: November 2011

Carrot (Daucus carota var. sativa DC.), an important root vegetable, is cultivated widely because of its dietary fiber and beta carotene. In June 2009 and June 2010, a disease suspected as root rot of carrot caused by Sclerotium rolfsii occurred in a 5-ha field in Jinju, Korea. Early symptoms consisted of water-soaked lesions on root and lower stem tissue near the soil line. Infected plants gradually withered and white mycelial mats appeared on the surface of roots. Numerous sclerotia were often produced on stem and root surfaces in contact with the soil. The heavily infected carrots became rotted and blighted and the whole plant eventually died. The freshly isolated pathogenic fungus was grown on potato dextrose agar (PDA) and examined microscopically. Optimum temperature for mycelia growth or sclerotia formation was 25 to 30°C. Numerous globoid sclerotia formed on the PDA after 18 days of mycelial growth. The sclerotia (1 to 3 mm in diameter) were white at first and then gradually turned dark brown. Aerial mycelia usually formed, consisting of many narrow hyphal strands 3 to 9 μm wide. The white mycelium formed a typical clamp connection after 5 days of growth at optimum temperature. To fulfill Koch's postulates, 10 carrot seedlings were inoculated with colonized agar discs (6 mm in diameter) of the causal fungus directly on the root and incubated in a humid chamber at 25°C for 24 h. Ten carrot seedlings were inoculated similarly with agar discs as the control treatment. After this period, the inoculated and noninoculated plants were maintained in a greenhouse. Eight days after inoculation, the disease symptoms seen in the field were reproduced and the fungus was reisolated from the artificially inoculated plants. To confirm identity of the causal fungus, the complete internal transcribed spacer (ITS) rDNA region of the causal fungus was amplified using the primers ITS1 and ITS4 (2) and sequenced. The resulting sequence of 684 bp was deposited in GenBank (Accession No. JF342557). The sequence was 99% similar to sequences of Athelia rolfsii (Sclerotium rolfsii) in GenBank. Cultures of S. rolfsii have been deposited with the Korean Agricultural Culture Collection (KACC 45154), National Academy of Agricultural Science, Korea. On the basis of symptoms, fungal colonies, the ITS sequence, and the pathogenicity test on the host plant, this fungus was identified as S. rolfsii Saccardo (1). To our knowledge, this is the first report of root rot of carrot caused by S. rolfsii in Korea. This disease is highly dependent upon environmental conditions, including warm weather and high humidity. Recent occurrence of the disease suggests that S. rolfsii could spread widely. References: (1) J. E. M. Mordue. CMI Descriptions of Pathogenic Fungi and Bacteria. No. 410, 1974. (2) T. J. White et al. Page 315 in: PCR Protocols: A Guide to Methods and Applications. M. A. Innis et al., eds. Academic Press, Inc., New York, 1990.
Evidence for benefit vs novelty in new intubation equipment
Authors: Behringer E. C. , Kristensen M. S. 
Published: November 2011

SummaryA myriad of new intubation equipment has been introduced commercially since the appearance of Macintosh/Miller blades in the 1940s. We review the role of devices that are relevant to current clinical practice based on their presence in the scientific literature. The comparative performance of new vs traditional direct laryngoscopes, their complications, their use in awake intubation techniques and the prediction of unsuccessful intubation with new devices are reviewed. Manikin studies are of limited value in this area. We conclude that in both predicted and unpredicted difficult or failed intubation, carefully selected new intubation equipment has a high success rate for tracheal intubation. Ideally, such devices should be available in all settings where tracheal intubation is performed. Most importantly, experience and competence with any of the new devices are critical for their successful use in any clinical setting.
Expression and regulation ofCCL15 by human airway smooth muscle cells
Authors: Joubert P. , Lajoie‐Kadoch S. , Wellemans V. , Létuvé S. , Tulic M. K. , Halayko A. J. , Hamid Q. 
Published: November 2011

SummaryBackgroundStructural cells are an important reservoir of chemokines that coordinate the influx of various immune cells to the lungs of asthmatics. Airway smooth muscle cells (ASMC) are an important source of these chemokines.CCL15 is a recently described chemo‐attractant for neutrophils, eosinophils, monocytes and lymphocytes.ObjectiveTo determine the production and the regulation ofCCL15 byASMCand to investigate its production in asthmatic airways.MethodsHumanASMCwere obtained from main bronchial airway segments of patients with mild, moderate and severe asthma. To induce chemokine production, cells were incubated withIL‐4,IL‐13,TNF‐α orIFN‐γ in presence or absence of dexamethasone, mithramycin A (SP‐1 inhibitor) or theIKK‐2 inhibitor,AS602868.CCL15 mRNAexpression was evaluated by real‐timePCR. ImmunoreactiveCCL15 was detected by immuno‐fluorescence andCCL15 protein concentration in the supernatant was measured usingELISA.ResultsCCL15 is constitutively expressed in humanASMCand is strongly up‐regulated byTNF‐α. This up‐regulation is inhibited by dexamethasone, mithramycin A andAS602868.TNF‐α‐inducedCCL15 levels can be synergistically enhanced by the presence ofIFN‐γ, at both the transcriptional and translation level. This synergism isNF‐κB‐dependent. Asthmatic biopsies demonstrated higher expression ofCCL15 compared with non‐asthmatic controls.Conclusion and Clinical RelevanceOur results show thatASMCare a potent source ofCCL15 in the airways and may directly participate in the recruitment of inflammatory cells to asthmatic airways. Targeting the production ofCCL15 byASMCmight reduce the inflammatory response within the airways of asthmatic patients.
Cardiopulmonary assessment in primary ciliary dyskinesia
Authors: Valerio Giuliana , Giallauria Francesco , Montella Silvia , Vaino Nicola , Vigorito Carlo , Mirra Virginia , Santamaria Francesca 
Published: November 2011

Eur J Clin Invest 2012; 42 (6): 617–622AbstractBackground  Primary ciliary dyskinesia (PCD) is a rare, usually autosomal recessive disorder of ciliary dysfunction associated with lung involvement, which has a great impact on health. There is limited information concerning the aerobic fitness of children and adolescents with PCD. The aim of this study was to assess cardiopulmonary functional capacity and its relationship with pulmonary function and physical activity (PA) levels in patients with PCD.Design  Ten patients with PCD (age 13·2 ± 2·8 years) underwent spirometry and cardiopulmonary exercise testing. PA was investigated through a questionnaire. Eight age‐ and body mass index‐matched healthy children were enrolled as controls. Main variables were forced expiratory volume at 1 s, peak oxygen uptake (VO2peak) and time spent in PA.Results  Forty per cent of patients with PCD had impaired lung function as expressed by FEV1 < 85% predicted. Only patients with impaired lung function exhibited reduced VO2peak (18·1 ± 7·9 mL/kg/min). Time spent in total daily PA was slightly lower in patients than controls, with no difference between patients with normal or reduced lung function. In multiple regression models, male gender (β = 0·518, P = 0·018), age (β = 0·752, P = 0·035) and time spent in vigorous PA (β = 0·353, P = 0·049) were independent predictors of aerobic fitness.Conclusions  Assessment of resting pulmonary function and cardiopulmonary functional capacity could contribute to the evaluation of pulmonary impairment in PCD. Given the benefit of physical exercise on airway clearance and on general health and quality of life, patients with PCD should be encouraged to adopt an active lifestyle.
Use of atorvastatin to inhibit hypoxia‐induced myocardin expression
Authors: Chiu Chiung‐Zuan , Wang Bao‐Wei , Shyu Kou‐Gi 
Published: November 2011

Eur J Clin Invest 2012; 42 (5): 564–571AbstractBackground  Hypoxia induces the formation of reactive oxygen species (ROS), myocardin expression and cardiomyocyte hypertrophy. The 3‐hydroxy‐3‐methylglutaryl coenzyme A reductase inhibitors (statins) have been demonstrated to have both antioxidant and antihypertrophic effects. We evaluated the pathways of atorvastatin in repressing ROS and myocardin after hypoxia to prevent cardiomyocyte hypertrophy.Materials and methods  Cultured rat neonatal cardiomyocytes were subjected to hypoxia, and the expression of myocardin and ROS were evaluated. Different signal transduction inhibitors, atorvastatin and N‐acetylcysteine (NAC) were used to identify the pathways that inhibited myocardin expression and ROS. Electrophoretic motility shift assay (EMSA) and luciferase assay were used to identify the binding of myocardin/serum response factor (SRF) and transcription to cardiomyocytes. Cardiomyocyte hypertrophy was assessed by 3H‐proline incorporation assay.Results  Myocardin expression after hypoxia was inhibited by atorvastatin, RhoA/Rho kinase inhibitor (Y27632), extracellular signal‐regulated kinase (ERK) small interfering RNA (siRNA)/ERK pathway inhibitor (PD98059), myocardin siRNA and NAC. Bindings of myocardin/SRF, transcription of myocardin/SRF to cardiomyocytes, presence of myocardin in the nuclei of cardiomyocytes and protein synthesis after hypoxia were identified by EMSA, luciferase assay, confocal microscopy and 3H‐proline assay and were suppressed by atorvastatin, Y27632, PD98059 and NAC.Conclusions  Hypoxia in neonatal cardiomyocytes increases myocardin expression and ROS to cause cardiomyocyte hypertrophy, which can be prevented by atorvastatin by suppressing ROS and myocardin expression.