Domain choice in an experimental nested modeling prediction system for South America

The purposes of this paper are to evaluate the new version of the regional model, RegCM3, over South America for two test seasons, and to select a domain for use in an experimental nested prediction system, which incorporates RegCM3 and the European Community-Hamburg (ECHAM) general circulation model (GCM). To evaluate RegCM3, control experiments were completed with RegCM3 driven by both the NCEP/NCAR Reanalysis (NNRP) and ECHAM, using a small control domain (D-CTRL) and integration periods of January–March 1983 (El Niño) and January–March 1985 (La Niña). The new version of the regional model captures the primary circulation and rainfall differences between the two years over tropical and subtropical South America. Both the NNRP-driven and ECHAM-driven RegCM3 improve the simulation of the Atlantic intertropical convergence zone (ITCZ) compared to the GCM. However, there are some simulation errors. Irrespective of the driving fields, weak northeasterlies associated with reduced precipitation are observed over the Amazon. The simulation of the South Atlantic convergence zone is poor due to errors in the boundary condition forcing which appear to be amplified by the regional model. To select a domain for use in an experimental prediction system, sensitivity tests were performed for three domains, each of which includes important regional features and processes of the climate system. The domain sensitivity experiments were designed to determine how domain size and the location of the GCM boundary forcing affect the regional circulation, moisture transport, and rainfall in two years with different large scale conditions. First, the control domain was extended southward to include the exit region of the Andes low level jet (D-LLJ), then eastward to include the South Atlantic subtropical high (D-ATL), and finally westward to include the subsidence region of the South Pacific subtropical high and to permit the regional model more freedom to respond to the increased resolution of the Andes Mountains (D-PAC). In order to quantify differences between the domain experiments, measures of bias, root mean square error, and the spatial correlation pattern were calculated between the model results and the observed data for the seasonal average fields. The results show the GCM driving fields have remarkable control over the RegCM3 simulations. Although no single domain clearly outperforms the others in both seasons, the control domain, D-CTRL, compares most favorably with observations. Over the ITCZ region, the simulations were improved by including a large portion of the South Atlantic subtropical high (D-ATL). The methodology presented here provides a quantitative basis for evaluating domain choice in future studies

Insights into the Binding of Phenyltiocarbamide (PTC) Agonist to Its Target Human TAS2R38 Bitter Receptor

Humans' bitter taste perception is mediated by the hTAS2R subfamily of the G protein-coupled membrane receptors (GPCRs). Structural information on these receptors is currently limited. Here we identify residues involved in the binding of phenylthiocarbamide (PTC) and in receptor activation in one of the most widely studied hTAS2Rs (hTAS2R38) by means of structural bioinformatics and molecular docking. The predictions are validated by site-directed mutagenesis experiments that involve specific residues located in the putative binding site and trans-membrane (TM) helices 6 and 7 putatively involved in receptor activation. Based on our measurements, we suggest that (i) residue N103 participates actively in PTC binding, in line with previous computational studies. (ii) W99, M100 and S259 contribute to define the size and shape of the binding cavity. (iii) W99 and M100, along with F255 and V296, play a key role for receptor activation, providing insights on bitter taste receptor activation not emerging from the previously reported computational models

Predicting the seasonal evolution of southern African summer precipitation in the DePreSys3 prediction system

We assess the ability of the DePreSys3 prediction system to predict austral summer precipitation (DJF) over southern Africa, defined as the African continent south of 15°S. DePresys3 is a high resolution prediction system (at a horizontal resolution of ~ 60 km in the atmosphere in mid-latitudes and of the quarter degree in the Ocean) and spans the long period 1959–2016. We find skill in predicting interannual precipitation variability, relative to a long-term trend; the anomaly correlation skill score over southern Africa is greater than 0.45 for the first summer (i.e. lead month 2–4), and 0.37 over Mozambique, Zimbabwe and Zambia for the second summer (i.e. lead month 14–16). The skill is related to the successful prediction of the El-Nino Southern Oscillation (ENSO), and the successful simulation of ENSO teleconnections to southern Africa. However, overall skill is sensitive to the inclusion of strong La-Nina events and also appears to change with forecast epoch. For example, the skill in predicting precipitation over Mozambique is significantly larger for the first summer in the 1990–2016 period, compared to the 1959–1985 period. The difference in skill in predicting interannual precipitation variability over southern Africa in different epochs is consistent with a change in the strength of the observed teleconnections of ENSO. After 1990, and consistent with the increased skill, the observed impact of ENSO appears to strengthen over west Mozambique, in association with changes in ENSO related atmospheric convergence anomalies. However, these apparent changes in teleconnections are not captured by the ensemble-mean predictions using DePreSys3. The changes in the ENSO teleconnection are consistent with a warming over the Indian Ocean and modulation of ENSO properties between the different epochs, but may also be associated with unpredictable atmospheric variability

Multi-Valued Expression Analysis for Collective Checking

International audienceDetermining if a parallel program behaves as expected on any execution is challenging due to non-deterministic executions. Static analyses help to detect all execution paths that can be executed concurrently by identifying multi-valued expressions, i.e. expressions evaluated differently among processes. This can be used to find collective errors in parallel programs. In this paper, we propose a new method that combines a control-flow analysis with a multi-valued expressions detection to find such errors. We implemented our method in the PARCOACH framework and successfully analyzed parallel applications using MPI, OpenMP, UPC and CUDA