On the evolution of decoys in plant immune systems

The Guard-Guardee model for plant immunity describes how resistance proteins (guards) in host cells monitor host target proteins (guardees) that are manipulated by pathogen effector proteins. A recently suggested extension of this model includes decoys, which are duplicated copies of guardee proteins, and which have the sole function to attract the effector and, when modified by the effector, trigger the plant immune response. Here we present a proof-of-principle model for the functioning of decoys in plant immunity, quantitatively developing this experimentally-derived concept. Our model links the basic cellular chemistry to the outcomes of pathogen infection and resulting fitness costs for the host. In particular, the model allows identification of conditions under which it is optimal for decoys to act as triggers for the plant immune response, and of conditions under which it is optimal for decoys to act as sinks that bind the pathogen effectors but do not trigger an immune response.Comment: 15 pages, 6 figure

Vertical distribution of aerosol optical properties in the Po Valley during the 2012 summer campaigns

Studying the vertical distribution of aerosol particle physical and chemical properties in the troposphere is essential to understand the relative importance of local emission processes vs. long-range transport for column-integrated aerosol properties (e.g. the aerosol optical depth, AOD, affecting regional climate) as well as for the aerosol burden and its impacts on air quality at the ground. The main objective of this paper is to investigate the transport of desert dust in the middle troposphere and its intrusion into the planetary boundary layer (PBL) over the Po Valley (Italy), a region considered one of the greatest European pollution hotspots for the frequency that particulate matter (PM) limit values are exceeded. Events of mineral aerosol uplift from local (soil) sources and phenomena of hygroscopic growth at the ground are also investigated, possibly affecting the PM concentration in the region as well. During the PEGASOS 2012 field campaign, an integrated observing–modelling system was set up based on near-surface measurements (particle concentration and chemistry), vertical profiling (backscatter coefficient profiles from lidar and radiosoundings) and Lagrangian air mass transport simulations by FLEXPART model. Measurements were taken at the San Pietro Capofiume supersite (44°39′ N, 11°37′ E; 11 m a.s.l.), located in a rural area relatively close to some major urban and industrial emissive areas in the Po Valley. Mt. Cimone (44°12′ N, 10°42′ E; 2165 m a.s.l.) WMO/GAW station observations are also included in the study to characterize regional-scale variability. Results show that, in the Po Valley, aerosol is detected mainly below 2000 m a.s.l. with a prevalent occurrence of non-depolarizing particles ( > 50 % throughout the campaign) and a vertical distribution modulated by the PBL daily evolution. Two intense events of mineral dust transport from northern Africa (19–21 and 29 June to 2 July) are observed, with layers advected mainly above 2000 m, but subsequently sinking and mixing in the PBL. As a consequence, a non-negligible occurrence of mineral dust is observed close to the ground (  ~7 % of occurrence during a 1-month campaign). The observations unambiguously show Saharan dust layers intruding the Po Valley mixing layer and directly affecting the aerosol concentrations near the surface. Finally, lidar observations also indicate strong variability in aerosol on shorter timescales (hourly). Firstly, these highlight events of hygroscopic growth of anthropogenic aerosol, visible as shallow layers of low depolarization near the ground. Such events are identified during early morning hours at high relative humidity (RH) conditions (RH  > 80 %). The process is observed concurrently with high PM1 nitrate concentration (up to 15 µg cm−3) and hence mainly explicable by deliquescence of fine anthropogenic particles, and during mineral dust intrusion episodes, when water condensation on dust particles could instead represent the dominant contribution. Secondly, lidar images show frequent events (mean daily occurrence of  ~ 22 % during the whole campaign) of rapid uplift of mineral depolarizing particles in afternoon–evening hours up to 2000 m a.s.l. height. The origin of such particles cannot be directly related to long-range transport events, being instead likely linked to processes of soil particle resuspension from agricultural lands

Comparison of vertical aerosol extinction coefficients from in-situ and LIDAR measurements

Vertical profiles of aerosol optical properties were explored in a case study near the San Pietro Capofiume (SPC) ground station during the PEGASOS Po Valley campaign in the summer of 2012. A Zeppelin NT airship was employed to investigate the effect of the dynamics of the planetary boundary layer at altitudes between ~ 50–800 m above ground. Determined properties included the aerosol size distribution, the hygroscopic growth factor, the effective index of refraction and the light absorption coefficient. The first three parameters were used to retrieve the light scattering coefficient. Simultaneously, direct measurements of both the scattering and absorption coefficient were carried out at the SPC ground station. Additionally, a LIDAR system provided aerosol extinction coefficients for a vertically resolved comparison between in-situ and remote sensing results. First, the airborne results at low altitudes were validated with the ground measurements. Agreement within approximately ±25 and ±20% was found for the dry scattering and absorption coefficient, respectively. The single scattering albedo, ranged between 0.83 to 0.95, indicating the importance of the absorbing particles in the Po Valley region. A clear layering of the atmosphere was observed during the beginning of the flight (until ~ 10 local time) before the mixed layer (ML) was fully developed. Highest extinction coefficients were found at low altitudes, in the new ML, while values in the residual layer, which could be probed at the beginning of the flight at elevated altitudes, were lower. At the end of the flight (after ~ 12 local time) the ML was fully developed, resulting in constant extinction coefficients at all altitudes measured on the Zeppelin NT. LIDAR results captured these dynamic features well and good agreement was found for the extinction coefficients compared to the in-situ results, using fixed LIDAR ratios (LR) between 30 and 70 sr for the altitudes probed with the Zeppelin. These LR are consistent with values for continental aerosol particles that can be expected in this region

Phase transitions in the Potts spin glass model

We have studied the Potts spin glass with 2-state Ising spins and s-state Potts variables using a cluster Monte Carlo dynamics. The model recovers the +- J Ising spin glass (SG) for s=1 and exhibits for all s a SG transition at T_{SG}(s) and a percolation transition at higher temperature T_p(s). We have shown that for all values of $s\neq 1$ at T_p(s) there is a thermodynamical transition in the universality class of a ferromagnetic s-state Potts model. The efficiency of the cluster dynamics is compared with that of standard spin flip dynamics.Comment: 8 pages, Latex, with 8 EPS fig

Single-atom electrocatalysis from first principles: Current status and open challenges

Single-atom catalysts (SACs) are heterogenous catalysts with elements in common with coordination compounds. We discuss some fundamental elements required for the successful computational modeling of SACs for electrocatalytic applications. The first two aspects are the role played by the exchange-correlation functional adopted within a given DFT approach and the role of the local coordination of the active transition metal atom. Next, we discuss new intermediates that can form on SACs and that are not present on extended metal electrodes and how to model solvation, with particular emphasis on the fact that on SACs water can not only act as a solvent but also as a ligand. Finally, we discuss challenges related to the inclusion of pH and voltage in the models and some open issue concerning the rational design of new SACs

Percolation transition and the onset of non exponential relaxation in fully frustrated models

We numerically study the dynamical properties of fully frustrated models in 2 and 3 dimensions. The results obtained support the hypothesis that the percolation transition of the Kasteleyn-Fortuin clusters corresponds to the onset of stretched exponential autocorrelation functions in systems without disorder. This dynamical behavior may be due to the ``large scale'' effects of frustration, present below the percolation threshold. Moreover these results are consistent with the picture suggested by Campbell et al. in space of configurations.Comment: 8 pages, 11 figures, revised versio

The impact of temporal synchronisation imprecision on TRF analyses

Human sensory perception requires our brains to extract, encode, and process multiple properties of the sensory input. In the context of continuous sensory signals, such as speech and music, the measured electrical neural activity synchronises to properties such as the acoustic envelope, a phenomenon referred to as neural tracking. The ability of measuring neural tracking with non-invasive neurophysiology constitutes an exciting new opportunity for applied research. For example, it enables the objective assessment of cognitive functions in challenging cohorts and environments by using pleasant, everyday tasks, such as watching videos. However, neural tracking has been mostly studied in controlled, laboratory environments guaranteeing precise synchronisation between the neural signal and the corresponding labels (e.g., speech envelope). There exist various challenges that could impact such a temporal precision in, for instance, out-of-lab scenarios, such as technology (e.g., wireless data acquisition), mobility requirements (e.g., clinical scenarios), and the task (e.g., imagery). Aiming to address this type of challenge, we focus on the predominant scenario of continuous sensory experiments involving listening to speech and music. First a temporal response function analysis is presented on two different datasets to assess the impact of trigger imprecision. Second, a proof-of-concept re-alignment methodology is proposed to determine potential issues with the temporal synchronisation. Finally, a use-case study is presented that demonstrates neural tracking measurements in a challenging scenario involving older individuals with neurocognitive decline in care homes. Significance Statement Human cognitive functions can be studied by measuring neural tracking with non-invasive neurophysiology as participants perform pleasant, everyday tasks, such as listening to music. However, while recent work has encouraged the use of this approach in applied research, it remains unclear how robust neural tracking measurements can be when considering the methodological constraints of applied scenarios. This study determines the impact of a key factor for the measurement of neural tracking: the temporal precision of the neural recording. The results provide clear guidelines for future research, indicating what level of imprecision can be tolerated for measuring neural tracking with speech and music listening tasks in both laboratory and applied settings. Furthermore, the study provides a strategy to assess the impact of imprecision in the synchronisation of the neural recording, thus developing new tools for applied neuroscience

Rapidity distributions around mid-rapidity of strange particles in Pb-Pb collisions at 158 AA GeV/c

The production at central rapidity of K0s, Lambda, Xi and Omega particles in Pb-Pb collisions at 158 A GeV/c has been measured by the NA57 experiment over a centrality range corresponding to the most central 53% of the inelastic Pb-Pb cross section. In this paper we present the rapidity distribution of each particle in the central rapidity unit as a function of the event centrality. The distributions are analyzed based on hydrodynamical models of the collisions.Comment: 15 pages, 10 figure