TY - JOUR A1 - Fournier, Bertrand A1 - Steiner, Magdalena A1 - Brochet, Xavier A1 - Degrune, Florine A1 - Mammeri, Jibril A1 - Carvalho, Diogo Leite A1 - Siliceo, Sara Leal A1 - Bacher, Sven A1 - Peña-Reyes, Carlos Andrés A1 - Heger, Thierry Jean T1 - Toward the use of protists as bioindicators of multiple stresses in agricultural soils BT - a case study in vineyard ecosystems JF - Ecological indicators : integrating monitoring, assessment and management N2 - Management of agricultural soil quality requires fast and cost-efficient methods to identify multiple stressors that can affect soil organisms and associated ecological processes. Here, we propose to use soil protists which have a great yet poorly explored potential for bioindication. They are ubiquitous, highly diverse, and respond to various stresses to agricultural soils caused by frequent management or environmental changes. We test an approach that combines metabarcoding data and machine learning algorithms to identify potential stressors of soil protist community composition and diversity. We measured 17 key variables that reflect various potential stresses on soil protists across 132 plots in 28 Swiss vineyards over 2 years. We identified the taxa showing strong responses to the selected soil variables (potential bioindicator taxa) and tested for their predictive power. Changes in protist taxa occurrence and, to a lesser extent, diversity metrics exhibited great predictive power for the considered soil variables. Soil copper concentration, moisture, pH, and basal respiration were the best predicted soil variables, suggesting that protists are particularly responsive to stresses caused by these variables. The most responsive taxa were found within the clades Rhizaria and Alveolata. Our results also reveal that a majority of the potential bioindicators identified in this study can be used across years, in different regions and across different grape varieties. Altogether, soil protist metabarcoding data combined with machine learning can help identifying specific abiotic stresses on microbial communities caused by agricultural management. Such an approach provides complementary information to existing soil monitoring tools that can help manage the impact of agricultural practices on soil biodiversity and quality. KW - Biomonitoring KW - Machine learning KW - Predictive model KW - Soil function KW - Soil KW - quality KW - Microbial ecology Y1 - 2022 U6 - https://doi.org/10.1016/j.ecolind.2022.108955 SN - 1470-160X SN - 1872-7034 VL - 139 PB - Elsevier CY - Amsterdam ER - TY - JOUR A1 - DeFelipe, Irene A1 - Alcalde, Juan A1 - Baykiev, Eldar A1 - Bernal, Isabel A1 - Boonma, Kittiphon A1 - Carbonell, Ramon A1 - Flude, Stephanie A1 - Folch, Arnau A1 - Fullea, Javier A1 - García-Castellanos, Daniel A1 - Geyer, Adelina A1 - Giralt, Santiago A1 - Hernández, Armand A1 - Jiménez-Munt, Ivone A1 - Kumar, Ajay A1 - Llorens, Maria-Gema A1 - Martí, Joan A1 - Molina, Cecilia A1 - Olivar-Castaño, Andrés A1 - Parnell, Andrew A1 - Schimmel, Martin A1 - Torné, Montserrat A1 - Ventosa, Sergi T1 - Towards a digital twin of the Earth system: Geo-Soft-CoRe, a geoscientific software & code repository JF - Frontiers in earth science N2 - The immense advances in computer power achieved in the last decades have had a significant impact in Earth science, providing valuable research outputs that allow the simulation of complex natural processes and systems, and generating improved forecasts. The development and implementation of innovative geoscientific software is currently evolving towards a sustainable and efficient development by integrating models of different aspects of the Earth system. This will set the foundation for a future digital twin of the Earth. The codification and update of this software require great effort from research groups and therefore, it needs to be preserved for its reuse by future generations of geoscientists. Here, we report on Geo-Soft-CoRe, a Geoscientific Software & Code Repository, hosted at the archive DIGITAL.CSIC. This is an open source, multidisciplinary and multiscale collection of software and code developed to analyze different aspects of the Earth system, encompassing tools to: 1) analyze climate variability; 2) assess hazards, and 3) characterize the structure and dynamics of the solid Earth. Due to the broad range of applications of these software packages, this collection is useful not only for basic research in Earth science, but also for applied research and educational purposes, reducing the gap between the geosciences and the society. By providing each software and code with a permanent identifier (DOI), we ensure its self-sustainability and accomplish the FAIR (Findable, Accessible, Interoperable and Reusable) principles. Therefore, we aim for a more transparent science, transferring knowledge in an easier way to the geoscience community, and encouraging an integrated use of computational infrastructure. KW - digital twin KW - software KW - code KW - global change KW - hazards KW - solid earth Y1 - 2022 U6 - https://doi.org/10.3389/feart.2022.828005 SN - 2296-6463 VL - 10 PB - Frontiers Media CY - Lausanne ER - TY - JOUR A1 - Sposini, Vittoria A1 - Krapf, Diego A1 - Marinari, Enzo A1 - Sunyer, Raimon A1 - Ritort, Felix A1 - Taheri, Fereydoon A1 - Selhuber-Unkel, Christine A1 - Benelli, Rebecca A1 - Weiss, Matthias A1 - Metzler, Ralf A1 - Oshanin, Gleb T1 - Towards a robust criterion of anomalous diffusion JF - Communications Physics N2 - Anomalous-diffusion, the departure of the spreading dynamics of diffusing particles from the traditional law of Brownian-motion, is a signature feature of a large number of complex soft-matter and biological systems. Anomalous-diffusion emerges due to a variety of physical mechanisms, e.g., trapping interactions or the viscoelasticity of the environment. However, sometimes systems dynamics are erroneously claimed to be anomalous, despite the fact that the true motion is Brownian—or vice versa. This ambiguity in establishing whether the dynamics as normal or anomalous can have far-reaching consequences, e.g., in predictions for reaction- or relaxation-laws. Demonstrating that a system exhibits normal- or anomalous-diffusion is highly desirable for a vast host of applications. Here, we present a criterion for anomalous-diffusion based on the method of power-spectral analysis of single trajectories. The robustness of this criterion is studied for trajectories of fractional-Brownian-motion, a ubiquitous stochastic process for the description of anomalous-diffusion, in the presence of two types of measurement errors. In particular, we find that our criterion is very robust for subdiffusion. Various tests on surrogate data in absence or presence of additional positional noise demonstrate the efficacy of this method in practical contexts. Finally, we provide a proof-of-concept based on diverse experiments exhibiting both normal and anomalous-diffusion. Y1 - 2022 U6 - https://doi.org/10.1038/s42005-022-01079-8 SN - 2399-3650 VL - 5 PB - Springer Nature CY - London ER - TY - JOUR A1 - Gomez Zapata, Juan Camilo A1 - Zafrir, Raquel A1 - Pittore, Massimiliano A1 - Merino, Yvonne T1 - Towards a sensitivity analysis in seismic risk with probabilistic building exposure models BT - an application in Valparaiso, Chile using ancillary open-source data and parametric ground motions JF - ISPRS International Journal of Geo-Information N2 - Efforts have been made in the past to enhance building exposure models on a regional scale with increasing spatial resolutions by integrating different data sources. This work follows a similar path and focuses on the downscaling of the existing SARA exposure model that was proposed for the residential building stock of the communes of Valparaiso and Vina del Mar (Chile). Although this model allowed great progress in harmonising building classes and characterising their differential physical vulnerabilities, it is now outdated, and in any case, it is spatially aggregated over large administrative units. Hence, to more accurately consider the impact of future earthquakes on these cities, it is necessary to employ more reliable exposure models. For such a purpose, we propose updating this existing model through a Bayesian approach by integrating ancillary data that has been made increasingly available from Volunteering Geo-Information (VGI) activities. Its spatial representation is also optimised in higher resolution aggregation units that avoid the inconvenience of having incomplete building-by-building footprints. A worst-case earthquake scenario is presented to calculate direct economic losses and highlight the degree of uncertainty imposed by exposure models in comparison with other parameters used to generate the seismic ground motions within a sensitivity analysis. This example study shows the great potential of using increasingly available VGI to update worldwide building exposure models as well as its importance in scenario-based seismic risk assessment. KW - exposure KW - buildings KW - Bayesian model KW - downscaling KW - OpenStreetMap KW - ground motion fields KW - sensitivity KW - earthquake KW - vulnerability KW - risk Y1 - 2022 U6 - https://doi.org/10.3390/ijgi11020113 SN - 2220-9964 VL - 11 IS - 2 PB - MDPI CY - Basel ER - TY - JOUR A1 - Steirou, Eva A1 - Gerlitz, Lars A1 - Sun, Xun A1 - Apel, Heiko A1 - Agarwal, Ankit A1 - Totz, Sonja Juliana A1 - Merz, Bruno T1 - Towards seasonal forecasting of flood probabilities in Europe using climate and catchment information JF - Scientific reports N2 - We investigate whether the distribution of maximum seasonal streamflow is significantly affected by catchment or climate state of the season/month ahead. We fit the Generalized Extreme Value (GEV) distribution to extreme seasonal streamflow for around 600 stations across Europe by conditioning the GEV location and scale parameters on 14 indices, which represent the season-ahead climate or catchment state. The comparison of these climate-informed models with the classical GEV distribution, with time-constant parameters, suggests that there is a substantial potential for seasonal forecasting of flood probabilities. The potential varies between seasons and regions. Overall, the season-ahead catchment wetness shows the highest potential, although climate indices based on large-scale atmospheric circulation, sea surface temperature or sea ice concentration also show some skill for certain regions and seasons. Spatially coherent patterns and a substantial fraction of climate-informed models are promising signs towards early alerts to increase flood preparedness already a season ahead. Y1 - 2022 U6 - https://doi.org/10.1038/s41598-022-16633-1 SN - 2045-2322 VL - 12 IS - 1 PB - Nature portfolio CY - Berlin ER - TY - JOUR A1 - Seleem, Omar A1 - Ayzel, Georgy A1 - Costa Tomaz de Souza, Arthur A1 - Bronstert, Axel A1 - Heistermann, Maik T1 - Towards urban flood susceptibility mapping using data-driven models in Berlin, Germany JF - Geomatics, natural hazards and risk N2 - Identifying urban pluvial flood-prone areas is necessary but the application of two-dimensional hydrodynamic models is limited to small areas. Data-driven models have been showing their ability to map flood susceptibility but their application in urban pluvial flooding is still rare. A flood inventory (4333 flooded locations) and 11 factors which potentially indicate an increased hazard for pluvial flooding were used to implement convolutional neural network (CNN), artificial neural network (ANN), random forest (RF) and support vector machine (SVM) to: (1) Map flood susceptibility in Berlin at 30, 10, 5, and 2 m spatial resolutions. (2) Evaluate the trained models' transferability in space. (3) Estimate the most useful factors for flood susceptibility mapping. The models' performance was validated using the Kappa, and the area under the receiver operating characteristic curve (AUC). The results indicated that all models perform very well (minimum AUC = 0.87 for the testing dataset). The RF models outperformed all other models at all spatial resolutions and the RF model at 2 m spatial resolution was superior for the present flood inventory and predictor variables. The majority of the models had a moderate performance for predictions outside the training area based on Kappa evaluation (minimum AUC = 0.8). Aspect and altitude were the most influencing factors on the image-based and point-based models respectively. Data-driven models can be a reliable tool for urban pluvial flood susceptibility mapping wherever a reliable flood inventory is available. KW - Urban pluvial flood susceptibility KW - convolutional neural network KW - deep KW - learning KW - random forest KW - support vector machine KW - spatial resolution; KW - flood predictors Y1 - 2022 U6 - https://doi.org/10.1080/19475705.2022.2097131 SN - 1947-5705 SN - 1947-5713 VL - 13 IS - 1 SP - 1640 EP - 1662 PB - Taylor & Francis CY - London ER - TY - JOUR A1 - Eckert, Silvia A1 - Herden, Jasmin A1 - Stift, Marc A1 - Durka, Walter A1 - Kleunen, Mark van A1 - Joshi, Jasmin T1 - Traces of genetic but not epigenetic adaptation in the invasive goldenrod Solidago canadensis despite the absence of population structure JF - Frontiers in Ecology and Evolution N2 - Biological invasions may result from multiple introductions, which might compensate for reduced gene pools caused by bottleneck events, but could also dilute adaptive processes. A previous common-garden experiment showed heritable latitudinal clines in fitness-related traits in the invasive goldenrod Solidago canadensis in Central Europe. These latitudinal clines remained stable even in plants chemically treated with zebularine to reduce epigenetic variation. However, despite the heritability of traits investigated, genetic isolation-by-distance was non-significant. Utilizing the same specimens, we applied a molecular analysis of (epi)genetic differentiation with standard and methylation-sensitive (MSAP) AFLPs. We tested whether this variation was spatially structured among populations and whether zebularine had altered epigenetic variation. Additionally, we used genome scans to mine for putative outlier loci susceptible to selection processes in the invaded range. Despite the absence of isolation-by-distance, we found spatial genetic neighborhoods among populations and two AFLP clusters differentiating northern and southern Solidago populations. Genetic and epigenetic diversity were significantly correlated, but not linked to phenotypic variation. Hence, no spatial epigenetic patterns were detected along the latitudinal gradient sampled. Applying genome-scan approaches (BAYESCAN, BAYESCENV, RDA, and LFMM), we found 51 genetic and epigenetic loci putatively responding to selection. One of these genetic loci was significantly more frequent in populations at the northern range. Also, one epigenetic locus was more frequent in populations in the southern range, but this pattern was lost under zebularine treatment. Our results point to some genetic, but not epigenetic adaptation processes along a large-scale latitudinal gradient of S. canadensis in its invasive range. KW - AFLP KW - MSAP KW - cytosine methylation KW - spatial autocorrelation KW - genome scan Y1 - 2022 U6 - https://doi.org/10.3389/fevo.2022.856453 SN - 2296-701X VL - 10 SP - 1 EP - 17 PB - Frontiers CY - Lausanne, Schweiz ER - TY - JOUR A1 - Timme, Sinika A1 - Wolff, Wanja A1 - Englert, Chris A1 - Brand, Ralf T1 - Tracking Self-Control – Task Performance and Pupil Size in a Go/No-Go Inhibition Task JF - Frontiers in Psychology N2 - There is an ongoing debate about how to test and operationalize self-control. This limited understanding is in large part due to a variety of different tests and measures used to assess self-control, as well as the lack of empirical studies examining the temporal dynamics during the exertion of self-control. In order to track changes that occur over the course of exposure to a self-control task, we investigate and compare behavioral, subjective, and physiological indicators during the exertion of self-control. Participants completed both a task requiring inhibitory control (Go/No-Go task) and a control task (two-choice task). Behavioral performance and pupil size were measured during the tasks. Subjective vitality was measured before and after the tasks. While pupil size and subjective vitality showed similar trajectories in the two tasks, behavioral performance decreased in the inhibitory control-demanding task, but not in the control task. However, behavioral, subjective, and physiological measures were not significantly correlated. These results suggest that there is a disconnect between different measures of self-control with high intra- and interindividual variability. Theoretical and methodological implications for self-control theory and future empirical work are discussed. KW - self-control KW - response inhibition KW - psychophysiological KW - behavioral and self-report measures KW - pupil diameter Y1 - 2022 U6 - https://doi.org/10.3389/fpsyg.2022.915016 SN - 1664-1078 VL - 13 PB - Frontiers CY - Lausanne, Schweiz ER - TY - JOUR A1 - Wiebking, Christine A1 - Lin, Chiao-I A1 - Wippert, Pia-Maria T1 - Training intervention effects on cognitive performance and neuronal plasticity — A pilot study JF - Frontiers in Neurology, section Neurorehabilitation N2 - Studies suggest that people suffering from chronic pain may have altered brain plasticity, along with altered functional connectivity between pain-processing brain regions. These may be related to decreased mood and cognitive performance. There is some debate as to whether physical activity combined with behavioral therapy (e.g. cognitive distraction, body scan) may counteract these changes. However, underlying neuronal mechanisms are unclear. The aim of the current pilot study with a 3-armed randomized controlled trial design was to examine the effects of sensorimotor training for nonspecific chronic low back pain on (1) cognitive performance; (2) fMRI activity co-fluctuations (functional connectivity) between pain-related brain regions; and (3) the relationship between functional connectivity and subjective variables (pain and depression). Six hundred and sixty two volunteers with non-specific chronic low back pain were randomly allocated to a unimodal (sensorimotor training), multidisciplinary (sensorimotor training and behavioral therapy) intervention, or to a control group within a multicenter study. A subsample of patients (n = 21) from one study center participated in the pilot study presented here. Measurements were at baseline, during (3 weeks, M2) and after intervention (12 weeks, M4 and 24 weeks, M5). Cognitive performance was measured by the Trail Making Test and functional connectivity by MRI. Pain perception and depression were assessed by the Von Korff questionnaire and the Hospital and Anxiety. Group differences were calculated by univariate and repeated ANOVA measures and Bayesian statistics; correlations by Pearson's r. Change and correlation of functional connection were analyzed within a pooled intervention group (uni-, multidisciplinary group). Results revealed that participants with increased pain intensity at baseline showed higher functional connectivity between pain-related brain areas used as ROIs in this study. Though small sample sizes limit generalization, cognitive performance increased in the multimodal group. Increased functional connectivity was observed in participants with increased pain ratings. Pain ratings and connectivity in pain-related brain regions decreased after the intervention. The results provide preliminary indication that intervention effects can potentially be achieved on the cognitive and neuronal level. The intervention may be suitable for therapy and prevention of non-specific chronic low back pain. KW - chronic back pain KW - sensorimotor training intervention KW - multimodal intervention KW - MRI KW - neuroplasticity Y1 - 2022 U6 - https://doi.org/10.3389/fneur.2022.773813 SN - 1664-2295 VL - 13 PB - Frontiers CY - Lausanne, Schweiz ER - TY - JOUR A1 - Apriyanto, Ardha A1 - Ajambang, Walter T1 - Transcriptomic dataset for early inflorescence stages of oil palm in response to defoliation stress JF - Data in Brief N2 - Oil palm breeding and seed development have been hindered due to the male parent's incapacity to produce male inflorescence as a source of pollen under normal conditions. On the other hand, a young oil palm plantation has a low pollination rate due to a lack of male flowers. These are the common problem of sex ratio in the oil palm industry. Nevertheless, the regulation of sex ratio in oil palm plants is a complex mechanism and remains an open question until now. Researchers have previously used complete defoliation to induce male inflorescences, but the biological and molecular mechanisms underlying this morphological change have yet to be discovered. Here, we present an RNA-seq dataset from three early stages of an oil palm inflorescence under normal conditions and complete defoliation stress. This transcriptomic dataset is a valuable resource to improve our understanding of sex determination mechanisms in oil palm inflorescence. KW - Complete defoliation KW - Flower development KW - Leaf axil KW - NGS KW - RNA-seq KW - Sex KW - determination Y1 - 2022 U6 - https://doi.org/10.1016/j.dib.2022.107914 SN - 2352-3409 VL - 41 PB - Elsevier CY - Amsterdam ER -