Neural networks based subgrid scale modeling in large eddy simulations

In this paper a multilayer feed-forward neural network (NN) is used as subgrid scale (SGS) model in a large eddy simulation (LES). The NN was previously off-line trained using numerical data generated by a LES of a channel flow at Re_τ=180 with Bardina's scale similar (BFR) SGS model. Results show the ability of NNs to identify and reproduce the highly nonlinear behavior of the turbulent flows, and therefore the possibility of using NN techniques in numerical simulations of turbulent flows.     

A Mixed Closure-CSP Method for Solving Scheduling Problems

Scheduling problems can be viewed as a set of temporal metric and disjunctive constraints and so they can be formulated in terms of CSP techniques. In the literature, there are CSP-based methods which sequentially interleave search efforts with the application of consistency enforcing mechanisms and variable/ordering heuristics. Therefore, the number of backtrackings needed to obtain a solution is reduced. In this paper, we propose a new method that effectively integrates the CSP process into a limited closure process: not by interleaving them but rather as a part of the same process. Such an integration allows us to define more informed heuristics. These heuristics are used to limit the complete closure process to a maximum number of disjunctions, thereby reducing its complexity while at the same time reducing the search space. Some open disjunctive solutions can be maintained in the CSP process, limiting the number of backtrackings necessary, and avoiding having to know all the problem constraints in advance. Our experiments with flow-shop and job-shop instances show that this approach obtains a feasible solution/optimal solution without having to use backtracking in most cases. We also analyze the behaviour of our algorithm when some constraints are known dynamically and we demonstrate that it can provide better results than a pure CSP process.     

Non-Gaussian Model for Ringing Phenomena in Offshore Structures

Significant interest has been shown in identifying the nonlinear mechanisms that induce a ringing type response in offshore structural systems. This high frequency transient type response has been observed in offshore systems, particularly in tension leg platforms (TLPs). Given the implications of this behavior on the fatigue life of TLP tendons, it is essential that ringing be considered in the overall response evaluation. This study presents two non-Gaussian probabilistic models of nonlinear viscous hydrodynamic wave forces that induce ringing. The response of a single-degree-of-freedom system exposed to these non-Gaussian wave force models is then evaluated using analytical and numerical studies based on the It? differentiation rule and the Monte Carlo simulation procedure, respectively. The results demonstrate that the proposed models induce ringing type response in a simplified structure. This study provides a probabilistic framework for modeling ringing type phenomenon which will serve as a building block for more refined hydrodynamic load models.     

Red and Blue Light Differently Influence Actinidia chinensis Performance and Its Interaction with Pseudomonas syringae pv. Actinidiae

Light composition modulates plant growth and defenses, thus influencing plant–pathogen interactions. We investigated the effects of different light-emitting diode (LED) red (R) (665 nm) and blue (B) (470 nm) light combinations on Actinidia chinensis performance by evaluating biometric parameters, chlorophyll a fluorescence, gas exchange and photosynthesis-related gene expression. Moreover, the influence of light on the infection by Pseudomonas syringae pv. actinidiae (Psa), the etiological agent of bacterial canker of kiwifruit, was investigated. Our study shows that 50%R–50%B (50R) and 25%R–75%B (25R) lead to the highest PSII efficiency and photosynthetic rate, but are the least effective in controlling the endophytic colonization of the host by Psa. Monochromatic red light severely reduced ΦPSII, ETR, Pn, TSS and photosynthesis-related genes expression, and both monochromatic lights lead to a reduction of DW and pigments content. Monochromatic blue light was the only treatment significantly reducing disease symptoms but did not reduce bacterial endophytic population. Our results suggest that monochromatic blue light reduces infection primarily by modulating Psa virulence more than host plant defenses.     

A Timeframe for SARS-CoV-2 Genomes: A Proof of Concept for Postmortem Interval Estimations

Establishing the timeframe when a particular virus was circulating in a population could be useful in several areas of biomedical research, including microbiology and legal medicine. Using simulations, we demonstrate that the circulation timeframe of an unknown SARS-CoV-2 genome in a population (hereafter, estimated time of a queried genome [QG]; t_E-QG) can be easily predicted using a phylogenetic model based on a robust reference genome database of the virus, and information on their sampling dates. We evaluate several phylogeny-based approaches, including modeling evolutionary (substitution) rates of the SARS-CoV-2 genome (~10⁻³ substitutions/nucleotide/year) and the mutational (substitutions) differences separating the QGs from the reference genomes (RGs) in the database. Owing to the mutational characteristics of the virus, the present Viral Molecular Clock Dating (VMCD) method covers timeframes going backwards from about a month in the past. The method has very low errors associated to the t_E-QG estimates and narrow intervals of t_E-QG, both ranging from a few days to a few weeks regardless of the mathematical model used. The SARS-CoV-2 model represents a proof of concept that can be extrapolated to any other microorganism, provided that a robust genome sequence database is available. Besides obvious applications in epidemiology and microbiology investigations, there are several contexts in forensic casework where estimating t_E-QG could be useful, including estimation of the postmortem intervals (PMI) and the dating of samples stored in hospital settings.     

Geometric Methods for Shape Recovery from Line Drawings of Polyhedra

Using structural geometric arguments, Whiteley showed that a line drawing is a correct projection of a spherical polyhedron if and only if it has a cross-section compatible with it. We here enlarge the class of drawings to which this test applies, including those of polyhedral disks, possibly with perforations. This extension is helpful, as it makes the test applicable to verify and reconstruct drawings from usual scenes with opaque objects.The presented results rely on geometric constructions, thus offering an alternativeapproach to line drawing interpretation, complementary to the algebraic-combinatorial treatment given in the classic work by Sugihara.Lluís Ros was born inVilafranca del Penedès (Catalonia), on June 30, 1968. He is currently a research scientist at the Institut de Robótica i Informàtica Industrial of the Spanish High Council for Scientific Research, where he holds a Ramón y Cajal position since February 2003. He received a M.Sc. degree in mechanical engineering in 1992, and a Ph.D. degree (with honors) in advanced robotics in 2000, both from the Polytechnic University of Catalonia. His research interests are in geometry, with applications to machine vision, robot kinematics and computer graphics.Federico Thomas was born in Barcelona, on October 5, 1961. He received the B.S. degree in telecommunications engineering in 1984, and the Ph.D. degree (with honors) in computer science in 1988, both from the Polytechnic University of Catalonia. Since March 1990, he has been a research scientist in the Institut de Robòtica i Informàtica Industrial of the Spanish High Council for Scientific Research. His research interests are in geometry and kinematics, with applications to robotics, computer graphics and machine vision.     

TMEM106B Acts as a Modifier of Cognitive and Motor Functions in Amyotrophic Lateral Sclerosis

The transmembrane protein 106B (TMEM106B) gene is a susceptibility factor and disease modifier of frontotemporal dementia, but few studies have investigated its role in amyotrophic lateral sclerosis. The aim of this work was to assess the impact of the TMEM106B rs1990622 (A–major risk allele; G–minor allele) on phenotypic variability of 865 patients with amyotrophic lateral sclerosis. Demographic and clinical features were compared according to genotypes by additive, dominant, and recessive genetic models. Bulbar onset was overrepresented among carriers of the AA risk genotype, together with enhanced upper motor neuron involvement and poorer functional status in patients harboring at least one major risk allele (A). In a subset of 195 patients, we found that the homozygotes for the minor allele (GG) showed lower scores at the Edinburgh Cognitive and Behavioral Amyotrophic Lateral Sclerosis Screen, indicating a more severe cognitive impairment, mainly involving the amyotrophic lateral sclerosis-specific cognitive functions and memory. Moreover, lower motor neuron burden predominated among patients with at least one minor allele (G). Overall, we found that TMEM106B is a disease modifier of amyotrophic lateral sclerosis, whose phenotypic effects encompass both sites of onset and functional status (major risk allele), motor functions (both major risk and minor alleles), and cognition (minor allele).     

L-Carnitine Functionalization to Increase Skeletal Muscle Tropism of PLGA Nanoparticles

Muscular dystrophies are a group of rare genetic pathologies, encompassing a variety of clinical phenotypes and mechanisms of disease. Several compounds have been proposed to treat compromised muscles, but it is known that pharmacokinetics and pharmacodynamics problems could occur. To solve these issues, it has been suggested that nanocarriers could be used to allow controlled and targeted drug release. Therefore, the aim of this study was to prepare actively targeted poly(lactide-co-glycolide) (PLGA) nanoparticles (NPs) for the treatment of muscular pathologies. By taking advantage of the high affinity for carnitine of skeletal muscle cells due to the expression of Na⁺-coupled carnitine transporter (OCTN), NPs have been actively targeted via association to an amphiphilic derivative of L-carnitine. Furthermore, pentamidine, an old drug repurposed for its positive effects on myotonic dystrophy type I, was incorporated into NPs. We obtained monodispersed targeted NPs, with a mean diameter of about 100 nm and a negative zeta potential. To assess the targeting ability of the NPs, cell uptake studies were performed on C2C12 myoblasts and myotubes using confocal and transmission electron microscopy. The results showed an increased uptake of carnitine-functionalized NPs compared to nontargeted carriers in myotubes, which was probably due to the interaction with OCTN receptors occurring in large amounts in these differentiated muscle cells.