Estimating causal networks in biosphere–atmosphere interaction with the PCMCI approach

Local meteorological conditions and biospheric activity are tightly coupled. Understanding these links is an essential prerequisite for predicting the Earth system under climate change conditions. However, many empirical studies on the interaction between the biosphere and the atmosphere are based on correlative approaches that are not able to deduce causal paths, and only very few studies apply causal discovery methods. Here, we use a recently proposed causal graph discovery algorithm, which aims to reconstruct the causal dependency structure underlying a set of time series. We explore the potential of this method to infer temporal dependencies in biosphere-atmosphere interactions. Specifically we address the following questions: How do periodicity and heteroscedasticity influence causal detection rates, i.e. the detection of existing and non-existing links? How consistent are results for noise-contaminated data? Do results exhibit an increased information content that justifies the use of this causal-inference method? We explore the first question using artificial time series with well known dependencies that mimic real-world biosphere-atmosphere interactions. The two remaining questions are addressed jointly in two case studies utilizing observational data. Firstly, we analyse three replicated eddy covariance datasets from a Mediterranean ecosystem at half hourly time resolution allowing us to understand the impact of measurement uncertainties. Secondly, we analyse global NDVI time series (GIMMS 3g) along with gridded climate data to study large-scale climatic drivers of vegetation greenness. Overall, the results confirm the capacity of the causal discovery method to extract time-lagged linear dependencies under realistic settings. The violation of the method's assumptions increases the likelihood to detect false links. Nevertheless, we consistently identify interaction patterns in observational data. Our findings suggest that estimating a directed biosphere-atmosphere network at the ecosystem level can offer novel possibilities to unravel complex multi-directional interactions. Other than classical correlative approaches, our findings are constrained to a few meaningful set of relations which can be powerful insights for the evaluation of terrestrial ecosystem models

SketCHI 4.0 : hands-on special interest group on remote sketching in HCI

Sketching is a physical activity: moving a stylus to create marks on paper or screen, from mind to visual output. But sketching can also translate to the virtual space. When we sketch collaboratively, we look for cues, exchange ideas, and annotate work via mark-making or comment. The digital medium has evolved to explore the potentials of sketching online, and this Special Interest Group aims to bring together researchers and practitioners interested in Sketching in HCI to explore the new virtual landscape of sketching, popularised by the constraints of the current world situation. We invite you to join our virtual group, discuss and share sketches, query the existing state-of-the-art, and help pave the way for the development of this medium in the virtual space with your imagery and ideation

Combination of photodynamic therapy and oral antifungals for the treatment of onychomycosis

Onychomycosis accounts for 50% of nail disorders, making it one of the most prevalent fungal diseases and a therapeutic challenge. Photodynamic therapy (PDT) could constitute a therapeutic alternative, owing to its good adherence, the low probability of resistance, the lack of interaction with antimicrobials, and its favorable adverse effect profile. This retrospective observational study included all patients with a microbiological diagnosis of onychomycosis treated with PDT at Miguel Servet University Hospital, Zaragoza (Spain), between January 2013 and June 2021. The protocol con-sisted of pre-treatment with 40% urea for 7 days, followed by 16% methyl-aminolevulinate (MAL) for 3 h and subsequent irradiation with a red-light LED lamp (37 J/cm2), every 1 or 2 weeks. Combined treatment with oral and/or topical antifungals was recorded. Of the 20 patients included (mean age, 59 ± 17 years), 55% were men. The most frequently detected microorganism was Trichophyton rubrum (55%). The most commonly affected location was the feet (90%): 50% of these cases were associated with tinea pedis. The median (standard deviation) number of PDT sessions was 6 (2.8). PDT was combined with systemic terbinafine (250 mg/day) in 10 cases (in 8 cases, this was administered for only 1 month), and with topical terbinafine in 3 cases. A complete clinical response was achieved in 80% (16) of cases and microbiological cure in 60% (12). PDT is a therapeutic alternative for ony-chomycosis, and can be administered either in monotherapy or combined with antifungals, allowing for a reduction in the duration and possible adverse effects of antifungal treatment and achieving higher cure rates than those obtained with either treatment alone

Seasonal adaptation of the thermal‐based two‐source energy balance model for estimating evapotranspiration in a semiarid tree‐grass ecosystem

© 2020 by the authors.The thermal-based two-source energy balance (TSEB) model has accurately simulated energy fluxes in a wide range of landscapes with both remote and proximal sensing data. However, tree-grass ecosystems (TGE) have notably complex heterogeneous vegetation mixtures and dynamic phenological characteristics presenting clear challenges to earth observation and modeling methods. Particularly, the TSEB modeling structure assumes a single vegetation source, making it difficult to represent the multiple vegetation layers present in TGEs (i.e., trees and grasses) which have different phenological and structural characteristics. This study evaluates the implementation of TSEB in a TGE located in central Spain and proposes a new strategy to consider the spatial and temporal complexities observed. This was based on sensitivity analyses (SA) conducted on both primary remote sensing inputs (local SA) and model parameters (global SA). The model was subsequently modified considering phenological dynamics in semi-arid TGEs and assuming a dominant vegetation structure and cover (i.e., either grassland or broadleaved trees) for different seasons (TSEB-2S). The adaptation was compared against the default model and evaluated against eddy covariance (EC) flux measurements and lysimeters over the experimental site. TSEB-2S vastly improved over the default TSEB performance decreasing the mean bias and root-mean-square-deviation (RMSD) of latent heat (LE) from 40 and 82 W m−2 to −4 and 59 W m−2, respectively during 2015. TSEB-2S was further validated for two other EC towers and for different years (2015, 2016 and 2017) obtaining similar error statistics with RMSD of LE ranging between 57 and 63 W m−2. The results presented here demonstrate a relatively simple strategy to improve water and energy flux monitoring over a complex and vulnerable landscape, which are often poorly represented through remote sensing models.The research received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement No 721995. It was also funded by Ministerio de Economía y Competitividad through FLUXPEC CGL2012-34383 and SynerTGE CGL2015-G9095-R (MINECO/FEDER, UE) projects. The research infrastructure at the measurement site in Majadas de Tiétar was partly funded through the Alexander von Humboldt Foundation, ELEMENTAL (CGL 2017-83538-C3-3-R, MINECO-FEDER) and IMAGINA (PROMETEU 2019; Generalitat Valenciana).Peer reviewe

Multiple-constraint inversion of SCOPE. Evaluating the potential of GPP and SIF for the retrieval of plant functional traits

The most recent efforts to provide remote sensing (RS) estimates of plant function rely on the combination of Radiative Transfer Models (RTM) and Soil-Vegetation-Atmosphere Transfer (SVAT) models, such as the Soil-Canopy Observation Photosynthesis and Energy fluxes (SCOPE) model. In this work we used ground spectroradiometric and chamber-based CO2 flux measurements in a nutrient manipulated Mediterranean grassland in order to: 1) develop a multiple-constraint inversion approach of SCOPE able to retrieve vegetation biochemical, structural as well as key functional traits, such as chlorophyll concentration (Cab), leaf area index (LAI), maximum carboxylation rate (Vcmax) and the Ball-Berry sensitivity parameter (m); and 2) compare the potential of the of gross primary production (GPP) and sun-induced fluorescence (SIF), together with up-welling Thermal Infrared (TIR) radiance and optical reflectance factors (RF), to estimate such parameters. The performance of the proposed inversion method as well as of the different sets of constraints was assessed with contemporary measurements of water and heat fluxes and leaf nitrogen content, using pattern-oriented model evaluation. The multiple-constraint inversion approach proposed together with the combination of optical RF and diel GPP and TIR data provided reliable estimates of parameters, and improved predicted water and heat fluxes. The addition of SIF to this scheme slightly improved the estimation of m. Parameter estimates were coherent with the variability imposed by the fertilization and the seasonality of the grassland. Results revealed that fertilization had an impact on Vcmax, while no significant differences were found for m. The combination of RF, SIF and diel TIR data weakly constrained functional traits. Approaches not including GPP failed to estimate LAI; however GPP overestimated Cab in the dry period. These problems might be related to the presence of high fractions of senescent leaves in the grassland. The proposed inversion approach together with pattern-oriented model evaluation open new perspectives for the retrieval of plant functional traits relevant for land surface models, and can be utilized at various research sites where hyperspectral remote sensing imagery and eddy covariance flux measurements are simultaneously taken

Extracts of Feijoa Inhibit Toll-Like Receptor 2 Signaling and Activate Autophagy Implicating a Role in Dietary Control of IBD

Inflammatory bowel disease (IBD) is a heterogeneous chronic inflammatory disease affecting the gut with limited treatment success for its sufferers. This suggests the need for better understanding of the different subtypes of the disease as well as nutritional interventions to compliment current treatments. In this study we assess the ability of a hydrophilic feijoa fraction (F3) to modulate autophagy a process known to regulate inflammation, via TLR2 using IBD cell lines

Genome bioinformatic analysis of nonsynonymous SNPs

Background: Genome-wide association studies of common diseases for common, low penetrance causal variants are underway. A proportion of these will alter protein sequences, the most common of which is the non-synonymous single nucleotide polymorphism (nsSNP). It would be an advantage if the functional effects of an nsSNP on protein structure and function could be predicted, both for the final identification process of a causal variant in a disease-associated chromosome region, and in further functional analyses of the nsSNP and its disease-associated protein. Results: In the present report we have compared and contrasted structure-and sequence-based methods of prediction to over 5500 genes carrying nearly 24,000 nsSNPs, by employing an automatic comparative modelling procedure to build models for the genes. The nsSNP information came from two sources, the OMIM database which are rare (minor allele frequency, MAF, 0.05, have no known link to a disease. For over 40% of the nsSNPs, structure-based methods predicted which of these sequence changes are likely to either disrupt the structure of the protein or interfere with the function or interactions of the protein. For the remaining 60%, we generated sequence-based predictions. Conclusion: We show that, in general, the prediction tools are able distinguish disease causing mutations from those mutations which are thought to have a neutral affect. We give examples of mutations in genes that are predicted to be deleterious and may have a role in disease. Contrary to previous reports, we also show that rare mutations are consistently predicted to be deleterious as often as commonly occurring nsSNPs.RIGHTS : This article is licensed under the BioMed Central licence at http://www.biomedcentral.com/about/license which is similar to the 'Creative Commons Attribution Licence'. In brief you may : copy, distribute, and display the work; make derivative works; or make commercial use of the work - under the following conditions: the original author must be given credit; for any reuse or distribution, it must be made clear to others what the license terms of this work are

Vulnerability assessment of spatial networks: models and solutions

In this paper we present a collection of combinatorial optimization problems that allows to assess the vulnerability of spatial networks in the presence of disruptions. The proposed measures of vulnerability along with the model of failure are suitable in many applications where the consideration of failures in the transportation system is crucial. By means of computational results, we show how the proposed methodology allows us to find useful information regarding the capacity of a network to resist disruptions and under which circumstances the network collapses

How nitrogen and phosphorus availability change water use efficiency in a Mediterranean savanna ecosystem

Nutrient availability, especially of nitrogen (N) and phosphorus (P), is of major importance for every organism and at a larger scale for ecosystem functioning and productivity. Changes in nutrient availability and potential stoichiometric imbalance due to anthropogenic nitrogen deposition might lead to nutrient deficiency or alter ecosystem functioning in various ways. In this study, we present 6 years (2014–2020) of flux-, plant-, and remote sensing data from a large-scale nutrient manipulation experiment conducted in a Mediterranean savanna-type ecosystem with an emphasis on the effects of N and P treatments on ecosystem-scale water-use efficiency (WUE) and related mechanisms. Two plots were fertilized with N (NT, 16.9 Ha) and N + P (NPT, 21.5 Ha), and a third unfertilized plot served as a control (CT). Fertilization had a strong impact on leaf nutrient stoichiometry only within the herbaceous layer with increased leaf N in both fertilized treatments and increased leaf P in NPT. Following fertilization, WUE in NT and NPT increased during the peak of growing season. While gross primary productivity similarly increased in NT and NPT, transpiration and surface conductance increased more in NT than in NPT. The results show that the NPT plot with higher nutrient availability, but more balanced N:P leaf stoichiometry had the highest WUE. On average, higher N availability resulted in a 40% increased leaf area index (LAI) in both fertilized treatments in the spring. Increased LAI reduced aerodynamic conductance and thus evaporation at both fertilized plots in the spring. Despite reduced evaporation, annual evapotranspiration increased by 10% (48.6 ± 28.3 kg H2O m−2), in the NT plot, while NPT remained similar to CT (−1%, −6.7 ± 12.2 kgH2O m−2). Potential causes for increased transpiration at NT could be increased root biomass and thus higher water uptake or rhizosphere priming to increase P-mobilization through microbes. The annual net ecosystem exchange shifted from a carbon source in CT (75.0 ± 20.6 gC m−2) to carbon-neutral in both fertilized treatments [−7.0 ± 18.5 gC m−2 (NT) 0.4 ± 22.6 gC m−2 (NPT)]. Our results show, that the N:P stoichiometric imbalance, resulting from N addition (without P), increases the WUE less than the addition of N + P, due to the strong increase in transpiration at NT, which indicates the importance of a balanced N and P content for WUE