Flow regimes study within the Strait of Gibraltar using a high-performance numerical model

A three-dimensional sigma coordinate free-surface high-performance model is used to investigate the flow regimes within the Strait of Gibraltar. High performances are achieved through a directive-based, MPI-like, parallelization of the code, obtained using SMS tool. The model makes use of a coastal-following, curvilinear orthogonal grid, that includes the Gulf of Cadiz and the Alboran Sea, reaching very high resolution in the Strait. Four experiments with different initial salinity conditions representing the present and possible future climate conditions over the Mediterranean basin have been performed. Model results, analysed by means of the three-layer composite Froude number theory, have shown two different possible regimes within the strait; for the present climate condition the strait is subjected to a sub-maximal regimewhilefor possible future climate conditions a maximal regime can be reached

Climate variations in the Northern Hemisphere based on the use of an atmosphere-ocean IPCC model

Forced and natural variability of modelled and observed Atlantic Ocean temperature and Atlantic Meridional Overturning Circulation (AMOC) is studied. In the observations and in a forced climate model run, we find increasing temperature at 1000m in the Atlantic (20N). SVD analysis shows that, for both model data and observations, a high index of North Atlantic Oscillation (NAO) corresponds to negative temperature anomaly at 1000m to the north of 55N, although geographical details of temperature anomaly distribution are different for the model and observations. Particular attention has been paid to the influence of the fresh water flux due to the present global warning on the slowing down of the AMOC. It is shown that fresh water flux change is only a secondary cause of reduced AMOC in global warming conditions, while heat flux change is probably the main reason. Finally, it is shown that internal model AMOC variability is positively correlated with the near-surface air temperature in Atlantic-European Arctic sector on a 10-year time scale

Structural control on the Tohoku earthquake rupture process investigated by 3D FEM, tsunami and geodetic data

The 2011 Tohoku earthquake (Mw = 9.1) highlighted previously unobserved features for megathrust events, such as the large slip in a relatively limited area and the shallow rupture propagation. We use a Finite Element Model (FEM), taking into account the 3D geometrical and structural complexities up to the trench zone, and perform a joint inversion of tsunami and geodetic data to retrieve the earthquake slip distribution. We obtain a close spatial correlation between the main deep slip patch and the local seismic velocity anomalies, and large shallow slip extending also to the North coherently with a seismically observed low-frequency radiation. These observations suggest that the friction controlled the rupture, initially confining the deeper rupture and then driving its propagation up to the trench, where it spreads laterally. These findings are relevant to earthquake and tsunami hazard assessment because they may help to detect regions likely prone to rupture along the megathrust, and to constrain the probability of high slip near the trench. Our estimate of ~40 m slip value around the JFAST (Japan Trench Fast Drilling Project) drilling zone contributes to constrain the dynamic shear stress and friction coefficient of the fault obtained by temperature measurements to ~0.68 MPa and ~0.10, respectively

Data set of submerged sand deposits organised in an interoperable spatial data infrastructure (Western Sardinia, Mediterranean Sea)

The expected global sea level rise by the year 2100 will determine adaptation of the whole coastal system and the land retreat of the shoreline. Future scenarios coupled with the improvement of mining technologies will favour increased exploitation of sand deposits for nourishment, especially for urban beaches and sandy coasts with lowlands behind them. The objective of the work is to provide useful tools to support planning in the management of sand deposits located on the continental shelf of Western Sardinia (western Mediterranean Sea). The work has been realised through the integration of data and information collected during several projects. Available data consist of morpho-bathymetric data (multibeam) associated with morphoacoustic (backscatter) data, collected in the depth range −25 to −700&thinsp;m. Extensive coverage of high-resolution seismic profiles (Chirp 3.5&thinsp;kHz) has been acquired along the continental shelf. Also, surface sediment samples (Van Veen grab and box corer) and vibrocorers have been collected. These data allow mapping of the submerged sand deposits with the determination of their thickness and volume and their sedimentological characteristics. Furthermore, it is possible to map the seabed geomorphological features of the continental shelf of Western Sardinia. All the available data (https://doi.org/10.1594/PANGAEA.895430) have been integrated and organised in a geodatabase implemented through a GIS and the software suite Geoinformation Enabling ToolkIT StarterKit® (GET-IT), developed by researchers of the Italian National Research Council for RITMARE project. GET-IT facilitates the creation of distributed nodes of an interoperable spatial data infrastructure (SDI) and enables unskilled researchers from various scientific domains to create their own Open Geospatial Consortium (OGC) standard services for distributing geospatial data, observations and metadata of sensors and data sets. Data distribution through standard services follows the guidelines of the European Directive INSPIRE (DIRECTIVE 2007/2/EC); in particular, standard metadata describe each map level, containing identifiers such as data type, origin, property, quality, processing processes to foster data searching and quality assessment.</p

Lipids modulate the conformational dynamics of a secondary multidrug transporter

Direct interactions with lipids have emerged as key determinants of the folding, structure and function of membrane proteins, but an understanding of how lipids modulate protein dynamics is still lacking. Here, we systematically explored the effects of lipids on the conformational dynamics of the proton-powered multidrug transporter LmrP from Lactococcus lactis, using the pattern of distances between spin-label pairs previously shown to report on alternating access of the protein. We uncovered, at the molecular level, how the lipid headgroups shape the conformational-energy landscape of the transporter. The model emerging from our data suggests a direct interaction between lipid headgroups and a conserved motif of charged residues that control the conformational equilibrium through an interplay of electrostatic interactions within the protein. Together, our data lay the foundation for a comprehensive model of secondary multidrug transport in lipid bilayers

Uncovering Ubiquitin and Ubiquitin-like Signaling Networks

Microscopic imaging and technolog

Roadmap on dynamics of molecules and clusters in the gas phase

This roadmap article highlights recent advances, challenges and future prospects in studies of the dynamics of molecules and clusters in the gas phase. It comprises nineteen contributions by scientists with leading expertise in complementary experimental and theoretical techniques to probe the dynamics on timescales spanning twenty order of magnitudes, from attoseconds to minutes and beyond, and for systems ranging in complexity from the smallest (diatomic) molecules to clusters and nanoparticles. Combining some of these techniques opens up new avenues to unravel hitherto unexplored reaction pathways and mechanisms, and to establish their significance in, e.g. radiotherapy and radiation damage on the nanoscale, astrophysics, astrochemistry and atmospheric science

Computer animation as a tool to visualize effects of seismic wave propagation inside heterogeneous media

A technique to make computer animations representing the propagation of antiplane shear waves in heterogeneous dissipative media is presented. The aim is to develop a useful tool to better investigate the physics of site effectsin the 2D approximation. We apply this technique to real case studies that were the subject of previous papers. For each case study a movie has been made to illustrate the wavefield time evolution and its interaction with the geological structure. All the movies can be seen and downloaded at the web site http://sigfrido.ingrm.it/movies.html. The paper shows the most representative frames of movies, providing an overview of the role played by the topographic irregularities and the geometry of internal discontinuities in trapping and focusing energy. The details of the dynamics are well visualized through movies. Particular attention is devoted to the representation of simulated ground motion in sediment-filled basins under resonance conditions. Problems related to color scales and frame normalization are analysed and discussed