Intercomparison of cloud properties in DYAMOND simulations over the Atlantic Ocean

We intercompared the cloud properties of the DYnamics of the Atmospheric general circulation Modeled On Non-hydrostatic Domains (DYAMOND) simulation output over the Atlantic Ocean. The domain averaged outgoing longwave radiation (OLR) is relatively similar across the models, but the net shortwave radiation at the top of the atmosphere (NSR) shows large differences among the models. The models capture the triple modes of cloud systems corresponding to shallow, congestus, and high clouds, although their partition in these three categories is strongly model dependent. The simulated height of the shallow and congestus peaks is more robust than the peak of high clouds, whereas cloud water content exhibits larger intermodel differences than does cloud ice content. Furthermore, we investigated the resolution dependency of the vertical profiles of clouds for NICAM (Nonhydrostatic ICosahedral Atmospheric Model), ICON (Icosahedral Nonhydrostatic), and IFS (Integrated Forecasting System). We found that the averaged mixing ratio of ice clouds consistently increased with finer grid spacing. Such a consistent signal is not apparent for the mixing ratio of liquid clouds for shallow and congestus clouds. The impact of the grid spacing on OLR is smaller than on NSR and also much smaller than the intermodel differences

The Hamiltonian boundary term and quasi-local energy flux

The Hamiltonian for a gravitating region includes a boundary term which determines not only the quasi-local values but also, via the boundary variation principle, the boundary conditions. Using our covariant Hamiltonian formalism, we found four particular quasi-local energy-momentum boundary term expressions; each corresponds to a physically distinct and geometrically clear boundary condition. Here, from a consideration of the asymptotics, we show how a fundamental Hamiltonian identity naturally leads to the associated quasi-local energy flux expressions. For electromagnetism one of the four is distinguished: the only one which is gauge invariant; it gives the familiar energy density and Poynting flux. For Einstein's general relativity two different boundary condition choices correspond to quasi-local expressions which asymptotically give the ADM energy, the Trautman-Bondi energy and, moreover, an associated energy flux (both outgoing and incoming). Again there is a distinguished expression: the one which is covariant.Comment: 12 pages, no figures, revtex

Making Operation-based CRDTs Operation-based

Conflict-free Replicated Datatypes can simplify the design of predictable eventual consistency. They can be classified into state-based or operation-based. Operation-based approaches have the potential for allowing compact designs in both the sent message and the object state size, but cur- rent approaches are still far from this objective. Here we explore the design space for operation-based solutions, and we leverage the interaction with the middleware by offering a technique that delivers very compact solutions, while only broadcasting operation names and arguments.(undefined)(undefined

Ashtekar's New Variables and Positive Energy

We discuss earlier unsuccessful attempts to formulate a positive gravitational energy proof in terms of the New Variables of Ashtekar. We also point out the difficulties of a Witten spinor type proof. We then use the special orthonormal frame gauge conditions to obtain a locally positive expression for the New Variables Hamiltonian and thereby a ``localization'' of gravitational energy as well as a positive energy proof.Comment: 12 pages Plain Te

An initial event in insect innate immune response: structural and biological studies of interactions between β-1,3-glucan and the N-terminal domain of β-1,3-glucan recognition protein

In response to invading microorganisms, insect β-1,3-glucan recognition protein (βGRP), a soluble receptor in the hemolymph, binds to the surfaces of bacteria and fungi and activates serine protease cascades that promote destruction of pathogens by means of melanization or expression of antimicrobial peptides. Here we report on the NMR solution structure of the N-terminal domain of βGRP (N-βGRP) from Indian meal moth (Plodia interpunctella), which is sufficient to activate the prophenoloxidase (proPO) pathway resulting in melanin formation. NMR and isothermal calorimetric titrations of N-βGRP with laminarihexaose, a glucose hexamer containing β-1,3 links, suggest a weak binding of the ligand. However, addition of laminarin, a glucose polysaccharide (~ 6 kDa) containing β-1,3 and β-1,6 links that activates the proPO pathway, to N-βGRP results in the loss of NMR cross-peaks from the backbone 15N-1H groups of the protein, suggesting the formation of a large complex. Analytical ultra centrifugation (AUC) studies of formation of N-βGRP:laminarin complex show that ligand-binding induces sel-fassociation of the protein:carbohydrate complex into a macro structure, likely containing six protein and three laminarin molecules (~ 102 kDa). The macro complex is quite stable, as it does not undergo dissociation upon dilution to sub-micromolar concentrations. The structural model thus derived from the present studies for N-βGRP:laminarin complex in solution differs from the one in which a single N-βGRP molecule has been proposed to bind to a triple helical form of laminarin on the basis of an X-ray crystallographic structure of N-βGRP:laminarihexaose complex [Kanagawa, M., Satoh, T., Ikeda, A., Adachi, Y., Ohno, N., and Yamaguchi, Y. (2011) J. Biol. Chem. 286, 29158-29165]. AUC studies and phenoloxidase activation measurements carried out with the designed mutants of N-βGRP indicate that electrostatic interactions involving Asp45, Arg54, and Asp68 between the ligand-bound protein molecules contribute in part to the stability of N-βGRP:laminarin macro complex and that a decreased stability is accompanied by a reduced activation of the proPO pathway. Increased β-1,6 branching in laminarin also results in destabilization of the macro complex. These novel findings suggest that ligand-induced self-association of βGRP:β-1,3-glucan complex may form a platform on a microbial surface for recruitment of downstream proteases, as a means of amplification of the initial signal of pathogen recognition for the activation of the proPO pathway

Gene and protein expression of glucose transporter 1 and glucose transporter 3 in human laryngeal cancer—the relationship with regulatory hypoxia-inducible factor-1α expression, tumor invasiveness, and patient prognosis

Increased glucose uptake mediated by glucose transporters and reliance on glycolysis are common features of malignant cells. Hypoxia-inducible factor-1α supports the adaptation of hypoxic cells by inducing genes related to glucose metabolism. The contribution of glucose transporter (GLUT) and hypoxia-inducible factor-1α (HIF-1α) activity to tumor behavior and their prognostic value in head and neck cancers remains unclear. The aim of this study was to examine the predictive value of GLUT1, GLUT3, and HIF-1α messenger RNA (mRNA)/protein expression as markers of tumor aggressiveness and prognosis in laryngeal cancer. The level of hypoxia/metabolic marker genes was determined in 106 squamous cell laryngeal cancer (SCC) and 73 noncancerous matched mucosa (NCM) controls using quantitative realtime PCR. The related protein levels were analyzed by Western blot. Positive expression of SLC2A1, SLC2A3, and HIF-1α genes was noted in 83.9, 82.1, and 71.7 % of SCC specimens and in 34.4, 59.4, and 62.5 % of laryngeal cancer samples. Higher levels of mRNA/protein for GLUT1 and HIF-1α were noted in SCC compared to NCM (p<0.05). SLC2A1 was found to have a positive relationship with grade, tumor front grading (TFG) score, and depth and mode of invasion (p<0.05). SLC2A3 was related to grade and invasion type (p<0.05). There were also relationships of HIF-1α with pTNM, TFG scale, invasion depth and mode, tumor recurrences, and overall survival (p<0.05). In addition, more advanced tumors were found to be more likely to demonstrate positive expression of these proteins. In conclusion, the hypoxia/metabolic markers studied could be used as molecular markers of tumor invasiveness in laryngeal cancer.This work was supported, in part, by the statutory fund of the Department of Cytobiochemistry, University of Łódź, Poland (506/811), and by grant fromtheNational Science Council, Poland (N403 043 32/2326)

Handling Disturbance and Awareness of Concurrent Updates in a Collaborative Editor

International audienceWhen people work collaboratively on a shared document, they have two contradictory requirements on their editors that may affect the efficiency of their work. On the one hand, they would like to know what other people are currently doing on a particular part of the document. On the other hand, they would like to focus their attention on their own current work, with as little disturbance from the concurrent activities as possible. We present some features that help the user handle disturbance and awareness of concurrent updates. While collabora-tively editing a shared document with other people, a user can create a focus region. The user can concentrate on the work in the region without being interfered with the concurrent updates of the other people. Occasionally, the user can preview the concurrent updates and select a number of these updates to be integrated into the local copy. We have implemented a collaborative editing subsystem in the GNU Emacs 5 text editor with the described features

Terahertz underdamped vibrational motion governs protein-ligand binding in solution

Low-frequency collective vibrational modes in proteins have been proposed as being responsible for efficiently directing biochemical reactions and biological energy transport. However, evidence of the existence of delocalized vibrational modes is scarce and proof of their involvement in biological function absent. Here we apply extremely sensitive femtosecond optical Kerr-effect spectroscopy to study the depolarized Raman spectra of lysozyme and its complex with the inhibitor triacetylchitotriose in solution. Underdamped delocalized vibrational modes in the terahertz frequency domain are identified and shown to blue-shift and strengthen upon inhibitor binding. This demonstrates that the ligand-binding coordinate in proteins is underdamped and not simply solvent-controlled as previously assumed. The presence of such underdamped delocalized modes in proteins may have significant implications for the understanding of the efficiency of ligand binding and protein–molecule interactions, and has wider implications for biochemical reactivity and biological function