{"type": "FeatureCollection", "features": [{"id": "10.5281/zenodo.15835321", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:20:58Z", "type": "Dataset", "title": "Single- and double-cropping soybean production systems in Brazil: EPIC-IIASA GGCM simulations", "description": "Soy production in Brazil continues to expand in response to growing global demand. This expansion has been enabled by improved soy varieties and greater agricultural flexibility, allowing for practices such as double-cropping. Being able to model recent past areal expansion and productivity increase of these cropping systems requires a good assessment of their productivity and environmental externalities (e.g., soil organic carbon, soil erosion, nutrient leaching) under alternative management practices.  To assess the productivity and environmental impacts of soybean production systems in Brazil, we employed a gridded modelling framework EPIC-IIASA GGCM, based on the process-based model EPIC (Environmental Policy Integrated Climate, https://epicapex.tamu.edu/about/epic). The analysis included key cropping systems and conservation practices commonly used in Brazil today: soy mono-cropping, no-till double cropping with corn, and no-till soy cultivation with pearl millet cover cropping. Additionally, we evaluated the role of irrigation and cultivar transitions as management options to support the sustainable transformation of soybean production.  Simulations were conducted on a 0.5\u00b0 resolution grid covering the period from 1982 to 2016, contributing to Deliverable 6.1, \u201cNon-food biomass production based on biophysical modelling\u201d, developed under the CLEVER project (Creating Leverage to Enhance Biodiversity Outcomes of Global Biomass Trade), funded by the Horizon Europe programme (Topic: HORIZON-CL6-2021-BIODIV-01-15, Project Number: 101060765). Among other goals, the CLEVER project seeks to enhance biodiversity outcomes through improved modelling of global biomass trade.  These files are included:  1) CLEVER_BRA_SOY_YLD.zip including 20 NetCDF files containing gridded soybean yield data modelled for soybean production systems, based on the simulation design described in the ReadMe file  2) CLEVER_BRA_SOY_ENVI.zip including 60 NetCDF files containing gridded environmental externality data modelled for soybean production systems, based on the simulation design described in the ReadMe file.  3) ReadMe.docx: Simulation design and metadata description.", "keywords": ["Yield (agricultural)", "Sustainable agriculture", "Computer Simulation"], "contacts": [{"organization": "Balkovic, Juraj, Skalsky, Rastislav, Folberth, Christian, Oberleitner, Thomas,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5281/zenodo.15835321"}, {"rel": "self", "type": "application/geo+json", "title": "10.5281/zenodo.15835321", "name": "item", "description": "10.5281/zenodo.15835321", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5281/zenodo.15835321"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2025-07-08T00:00:00Z"}}, {"id": "10.1002/etc.4059", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:14:13Z", "type": "Journal Article", "created": "2017-12-14", "title": "Dissipative particle dynamic simulation and experimental assessment of the impacts of humic substances on aqueous aggregation and dispersion of engineered nanoparticles", "description": "Abstract                                   \uffe2\uff80\uff83                   <p>Comprehensive experimental quantification and mapping of the aggregation and dispersion state of engineered nanoparticles (NPs) in the presence of humic substances is a great challenge. Dissipative particle dynamic (DPD) simulation was adopted to investigate the aggregation and dispersion mechanisms of NPs in the presence of a humic substance analog. Twelve different types of NPs including 2 metal-based NPs, 7 metal oxide-based NPs, and 3 carbon-based NPs in pure water (pH 3.0) and algae medium (pH 8.0) in the presence of a humic substance analogy were selected for experimental verification of the DPD simulation results. In agreement with results obtained with dynamic light scattering and phase analysis light scattering techniques, the simulations demonstrated that the presence of humic substances reduced the aggregation extent of the NPs. The DPD simulations showed that the stability and dispersity of the NPs increased first, and then decreased with increasing concentrations of humic substances. Moreover, there existed a concentration of humic substances where the NPs became more stable and more dispersed, which was experimentally verified in the case of all the NPs in the pure water and in the algae medium. Furthermore, theory and simulation indicate that both hydrophobic and hydrogen interaction play an important role in controlling the formation of NP aggregates in the presence of humic substances. Electrostatic interaction and steric repulsion are the main mechanisms underlying the effects of humic substances on the aqueous dispersion stability of NPs. Environ Toxicol Chem 2018;37:1024\uffe2\uff80\uff931031. \uffc2\uffa9 2017 SETAC</p>", "keywords": ["13. Climate action", "Static Electricity", "Nanoparticles", "Nanotechnology", "Water", "Computer Simulation", "14. Life underwater", "Hydrogen-Ion Concentration", "Particle Size", "Hydrophobic and Hydrophilic Interactions", "01 natural sciences", "Humic Substances", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://setac.onlinelibrary.wiley.com/doi/pdf/10.1002/etc.4059"}, {"href": "https://doi.org/10.1002/etc.4059"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Toxicology%20and%20Chemistry", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1002/etc.4059", "name": "item", "description": "10.1002/etc.4059", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1002/etc.4059"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-12-14T00:00:00Z"}}, {"id": "10.1007/s11538-017-0350-x", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:15:00Z", "type": "Journal Article", "created": "2017-10-13", "title": "An Explicit Structural Model of Root Hair and Soil Interactions Parameterised by Synchrotron X-ray Computed Tomography", "description": "The rhizosphere is a zone of fundamental importance for understanding the dynamics of nutrient acquisition by plant roots. The canonical difficulty of experimentally investigating the rhizosphere led long ago to the adoption of mathematical models, the most sophisticated of which now incorporate explicit representations of root hairs and rhizosphere soil. Mathematical upscaling regimes, such as homogenisation, offer the possibility of incorporating into larger-scale models the important mechanistic processes occurring at the rhizosphere scale. However, we lack concrete descriptions of all the features required to fully parameterise models at the rhizosphere scale. By combining synchrotron X-ray computed tomography (SRXCT) and a novel root growth assay, we derive a three-dimensional description of rhizosphere soil structure suitable for use in multi-scale modelling frameworks. We describe an approach to mitigate sub-optimal root hair detection via structural root hair growth modelling. The growth model is explicitly parameterised with SRXCT data and simulates three-dimensional root hair ideotypes in silico, which are suitable for both ideotypic analysis and parameterisation of 3D geometry in mathematical models. The study considers different hypothetical conditions governing root hair interactions with soil matrices, with their respective effects on hair morphology being compared between idealised and image-derived soil/root geometries. The studies in idealised geometries suggest that packing arrangement of soil affects hair tortuosity more than the particle diameter. Results in field-derived soil suggest that hair access to poorly mobile nutrients is particularly sensitive to the physical interaction between the growing hairs and the phase of the soil in which soil water is present (i.e. the hydrated textural phase). The general trends in fluid-coincident hair length with distance from the root, and their dependence on hair/soil interaction mechanisms, are conserved across Cartesian and cylindrical geometries.", "keywords": ["2. Zero hunger", "0301 basic medicine", "0303 health sciences", "Mathematical Concepts", "15. Life on land", "Models", " Biological", "Plant Roots", "Soil", "03 medical and health sciences", "Imaging", " Three-Dimensional", "Rhizosphere", "Original Article", "Computer Simulation", "Tomography", " X-Ray Computed", "Synchrotrons"]}, "links": [{"href": "http://link.springer.com/content/pdf/10.1007/s11538-017-0350-x.pdf"}, {"href": "https://doi.org/10.1007/s11538-017-0350-x"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Bulletin%20of%20Mathematical%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s11538-017-0350-x", "name": "item", "description": "10.1007/s11538-017-0350-x", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s11538-017-0350-x"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-10-13T00:00:00Z"}}, {"id": "10.1016/j.biortech.2012.11.029", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:15:23Z", "type": "Journal Article", "created": "2012-11-16", "title": "Life Cycle Assessment Of Biofuel Production From Brown Seaweed In Nordic Conditions", "description": "The use of algae for biofuel production is expected to play an important role in securing energy supply in the next decades. A consequential life cycle assessment (LCA) and an energy analysis of seaweed-based biofuel production were carried out in Nordic conditions to document and improve the sustainability of the process. Two scenarios were analyzed for the brown seaweed (Laminaria digitata), namely, biogas production (scenario 1) and bioethanol+biogas production (scenario 2). Potential environmental impact categories under investigation were Global Warming, Acidification and Terrestrial Eutrophication. The production of seaweed was identified to be the most energy intensive step. Scenario 1 showed better performance compared to scenario 2 for all impact categories, partly because of the energy intensive bioethanol separation process and the consequently lower overall efficiency of the system. For improved environmental performance, focus should be on optimization of seaweed production, bioethanol distillation, and management of digestate on land.", "keywords": ["Denmark", "Methanol", "0211 other engineering and technologies", "02 engineering and technology", "Environment", "Eutrophication", "Seaweed", "Global Warming", "Models", " Biological", "7. Clean energy", "6. Clean water", "12. Responsible consumption", "13. Climate action", "Biofuels", "0202 electrical engineering", " electronic engineering", " information engineering", "Computer Simulation", "14. Life underwater"]}, "links": [{"href": "https://doi.org/10.1016/j.biortech.2012.11.029"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Bioresource%20Technology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.biortech.2012.11.029", "name": "item", "description": "10.1016/j.biortech.2012.11.029", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.biortech.2012.11.029"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-02-01T00:00:00Z"}}, {"id": "10.1016/j.jhazmat.2025.137949", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:15:58Z", "type": "Journal Article", "created": "2025-03-17", "title": "Identification of new PFAS for severe interference with thyroid hormone transport: A combined in vitro/silico approach", "description": "A tiered in vitro/in silico approach was developed to screen 12,654 per- and polyfluoroalkyl substances (PFAS) for their potential to disrupt the thyroid hormone transport. Initially, a set of 45 PFAS was tested using TTR-TR\u03b2-CALUX bioassay, which was subsequently employed to develop a classification model, distinguishing active and inactive PFAS. The model fulfills all good practices for QSAR model validation and can predict whether a given PFAS can disrupt plasma transport of the thyroid hormone (T4). Subsequently, active compounds were used to develop two regression approaches: (i) multiple linear regression MLR, and (ii) second approach aimed at identifying multiple valid QSAR models based on different data-splitting strategies. Finally, a comprehensive virtual screening of a large PFAS dataset was conducted to assess their potency in disrupting thyroid hormone transport. The predictions indicated that more than 7500 compounds were active with over 100 PFAS potentially causing even greater adverse effects than PFOA. These findings highlight the critical role of integrating New Approach Methodologies (NAM)-based in vitro toxicity testing with multifaceted molecular modeling in assessing the risks associated with PFAS contamination in environmental matrices.", "keywords": ["Fluorocarbons", "Thyroid Hormones", "PFAS CALUX", "PFAS", "H2020", "Quantitative Structure-Activity Relationship", "Humans", "Computer Simulation", "Biological Transport", "Environmental Pollutants", "Endocrine Disruptors", "PROMISCES"]}, "links": [{"href": "https://doi.org/10.1016/j.jhazmat.2025.137949"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20Hazardous%20Materials", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.jhazmat.2025.137949", "name": "item", "description": "10.1016/j.jhazmat.2025.137949", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.jhazmat.2025.137949"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2025-07-01T00:00:00Z"}}, {"id": "10.1021/es303829w", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:16:34Z", "type": "Journal Article", "created": "2012-12-21", "title": "Can Dispersed Biomass Processing Protect The Environment And Cover The Bottom Line For Biofuel?", "description": "This paper compares environmental and profitability outcomes for a centralized biorefinery for cellulosic ethanol that does all processing versus a biorefinery linked to a decentralized array of local depots that pretreat biomass into concentrated briquettes. The analysis uses a spatial bioeconomic model that maximizes profit from crop and energy products, subject to the requirement that the biorefinery must be operated at full capacity. The model draws upon biophysical crop input-output coefficients simulated with the Environmental Policy Integrated Climate (EPIC) model as well as market input and output prices, spatial transportation costs, ethanol yields from biomass, and biorefinery capital and operational costs. The model was applied to 82 cropping systems simulated across 37 subwatersheds in a 9-county region of southern Michigan in response to ethanol prices simulated to rise from $1.78 to $3.36 per gallon. Results show that the decentralized local biomass processing depots lead to lower profitability but better environmental performance, due to more reliance on perennial grasses than the centralized biorefinery. Simulated technological improvement that reduces the processing cost and increases the ethanol yield of switchgrass by 17% could cause a shift to more processing of switchgrass, with increased profitability and environmental benefits.", "keywords": ["2. Zero hunger", "Michigan", "Ethanol", "Biomass production", " bioenergy supply", " cellulosic ethanol", " environmental trade-off analysis", " bioeconomic modeling", " EPIC", " spatial configuration", " local biomass processing", " Crop Production/Industries", " Environmental Economics and Policy", " Production Economics", " Resource /Energy Economics and Policy", " Q16", " Q15", " Q57", " Q18", "", "02 engineering and technology", "Environment", "Models", " Theoretical", "15. Life on land", "7. Clean energy", "13. Climate action", "Biofuels", "Costs and Cost Analysis", "0202 electrical engineering", " electronic engineering", " information engineering", "Computer Simulation", "Biomass"], "contacts": [{"organization": "Egbendewe-Mondzozo, Aklesso, Swinton, Scott M., Bals, Bryan D., Dale, Bruce E.,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1021/es303829w"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Science%20%26amp%3B%20Technology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1021/es303829w", "name": "item", "description": "10.1021/es303829w", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1021/es303829w"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-01-11T00:00:00Z"}}, {"id": "10.1073/pnas.1008779108", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:17:02Z", "type": "Journal Article", "created": "2011-03-02", "title": "Direct Climate Effects Of Perennial Bioenergy Crops In The United States", "description": "<p>Biomass-derived energy offers the potential to increase energy security while mitigating anthropogenic climate change, but a successful path toward increased production requires a thorough accounting of costs and benefits. Until recently, the efficacy of biomass-derived energy has focused primarily on biogeochemical consequences. Here we show that the biogeophysical effects that result from hypothetical conversion of annual to perennial bioenergy crops across the central United States impart a significant local to regional cooling with considerable implications for the reservoir of stored soil water. This cooling effect is related mainly to local increases in transpiration, but also to higher albedo. The reduction in radiative forcing from albedo alone is equivalent to a carbon emissions reduction of, which is six times larger than the annual biogeochemical effects that arise from offsetting fossil fuel use. Thus, in the near-term, the biogeophysical effects are an important aspect of climate impacts of biofuels, even at the global scale. Locally, the simulated cooling is sufficiently large to partially offset projected warming due to increasing greenhouse gases over the next few decades. These results demonstrate that a thorough evaluation of costs and benefits of bioenergy-related land-use change must include potential impacts on the surface energy and water balance to comprehensively address important concerns for local, regional, and global climate change.</p>", "keywords": ["Crops", " Agricultural", "2. Zero hunger", "Time Factors", "13. Climate action", "Biofuels", "Climate", "Computer Simulation", "15. Life on land", "01 natural sciences", "7. Clean energy", "United States", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1073/pnas.1008779108"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Proceedings%20of%20the%20National%20Academy%20of%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1073/pnas.1008779108", "name": "item", "description": "10.1073/pnas.1008779108", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1073/pnas.1008779108"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2011-02-28T00:00:00Z"}}, {"id": "10.1088/1748-3190/ac99c4", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:17:13Z", "type": "Journal Article", "created": "2022-10-12", "title": "Historical evolution and new trends for soil-intruder interaction modeling", "description": "Abstract                <p>Soil is a crucial resource for life on Earth. Every activity, whether natural or man-made, that interacts with the sub or deep soil can affect the land at large scales (e.g. geological risks). Understanding such interactions can help identify more sustainable and less invasive soil penetration, exploration, and monitoring solutions. Over the years, multiple approaches have been used in modeling soil mechanics to reveal soil behavior. This paper reviews the different modeling techniques used to simulate the interaction between a penetrating tool and the soil, following their use over time. Opening with analytical methods, we discuss the limitations that have partially been overcome by the finite element method (FEM). FEM models are capable of simulating more complex conditions and geometries. However, they require the continuum mechanics assumption. Hence, FEM analysis cannot simulate the discrete processes occurring during soil deformation (i.e. the separation and mixing of soil layers, the appearance of cracks, or the flow of soil particles). The discrete element method (DEM) has thus been adopted as a more promising modeling technique. Alongside models, experimental approaches have also been used to describe soil-intruder interactions, complementing or validating simulation results. Recently, bioinspired approaches have been considered promising to improve sustainability and reduce the invasiveness of classical penetration strategies. This review highlights how DEM-based models can help in studying the interaction mechanisms between bioinspired root-like artificial penetrometers and the soil. Bioinspired designs and the merging of multiple analysis approaches can offer new perspectives. These may be pivotal in the design of highly optimized soil robotic explorers capable of adapting their morphology and penetration strategies based on their surrounding conditions.</p>", "keywords": ["Soil", "13. Climate action", "Finite Element Analysis", "0211 other engineering and technologies", "Humans", "Computer Simulation", "Robotics", "02 engineering and technology", "15. Life on land"]}, "links": [{"href": "https://doi.org/10.1088/1748-3190/ac99c4"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Bioinspiration%20%26amp%3B%20Biomimetics", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1088/1748-3190/ac99c4", "name": "item", "description": "10.1088/1748-3190/ac99c4", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1088/1748-3190/ac99c4"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-11-09T00:00:00Z"}}, {"id": "10.1093/toxsci/kfae051", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:17:18Z", "type": "Journal Article", "created": "2024-04-18", "title": "Parameter grouping and co-estimation in physiologically based kinetic models using genetic algorithms", "description": "Abstract                <p>Physiologically based kinetic (PBK) models are widely used in pharmacology and toxicology for predicting the internal disposition of substances upon exposure, voluntarily or not. Due to their complexity, a large number of model parameters need to be estimated, either through in silico tools, in vitro experiments, or by fitting the model to in vivo data. In the latter case, fitting complex structural models on in vivo data can result in overparameterization and produce unrealistic parameter estimates. To address these issues, we propose a novel parameter grouping approach, which reduces the parametric space by co-estimating groups of parameters across compartments. Grouping of parameters is performed using genetic algorithms and is fully automated, based on a novel goodness-of-fit metric. To illustrate the practical application of the proposed methodology, two case studies were conducted. The first case study demonstrates the development of a new PBK model, while the second focuses on model refinement. In the first case study, a PBK model was developed to elucidate the biodistribution of titanium dioxide (TiO2) nanoparticles in rats following intravenous injection. A variety of parameter estimation schemes were employed. Comparative analysis based on goodness-of-fit metrics demonstrated that the proposed methodology yields models that outperform standard estimation approaches, while utilizing a reduced number of parameters. In the second case study, an existing PBK model for perfluorooctanoic acid (PFOA) in rats was extended to incorporate additional tissues, providing a more comprehensive portrayal of PFOA biodistribution. Both models were validated through independent in vivo studies to ensure their reliability.</p", "keywords": ["Titanium", "Male", "0301 basic medicine", "Fluorocarbons", "Models", " Biological", "Biotransformation", " Toxicokinetics", " and Pharmacokinetics", "Rats", "Kinetics", "03 medical and health sciences", "0302 clinical medicine", "Animals", "Nanoparticles", "Tissue Distribution", "Computer Simulation", "Caprylates", "Algorithms"]}, "links": [{"href": "https://academic.oup.com/toxsci/article-pdf/200/1/31/58318724/kfae051.pdf"}, {"href": "https://doi.org/10.1093/toxsci/kfae051"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Toxicological%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1093/toxsci/kfae051", "name": "item", "description": "10.1093/toxsci/kfae051", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1093/toxsci/kfae051"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-04-19T00:00:00Z"}}, {"id": "10.1111/gcb.17297", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:17:35Z", "type": "Journal Article", "created": "2024-05-13", "title": "Convergence in simulating global soil organic carbon by structurally different models after data assimilation", "description": "Abstract<p>Current biogeochemical models produce carbon\uffe2\uff80\uff93climate feedback projections with large uncertainties, often attributed to their structural differences when simulating soil organic carbon (SOC) dynamics worldwide. However, choices of model parameter values that quantify the strength and represent properties of different soil carbon cycle processes could also contribute to model simulation uncertainties. Here, we demonstrate the critical role of using common observational data in reducing model uncertainty in estimates of global SOC storage. Two structurally different models featuring distinctive carbon pools, decomposition kinetics, and carbon transfer pathways simulate opposite global SOC distributions with their customary parameter values yet converge to similar results after being informed by the same global SOC database using a data assimilation approach. The converged spatial SOC simulations result from similar simulations in key model components such as carbon transfer efficiency, baseline decomposition rate, and environmental effects on carbon fluxes by these two models after data assimilation. Moreover, data assimilation results suggest equally effective simulations of SOC using models following either first\uffe2\uff80\uff90order or Michaelis\uffe2\uff80\uff93Menten kinetics at the global scale. Nevertheless, a wider range of data with high\uffe2\uff80\uff90quality control and assurance are needed to further constrain SOC dynamics simulations and reduce unconstrained parameters. New sets of data, such as microbial genomics\uffe2\uff80\uff90function relationships, may also suggest novel structures to account for in future model development. Overall, our results highlight the importance of observational data in informing model development and constraining model predictions.</p", "keywords": ["Soil", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "Computer Simulation", "04 agricultural and veterinary sciences", "Models", " Theoretical", "15. Life on land", "01 natural sciences", "Carbon", "Carbon Cycle", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1111/gcb.17297"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Global%20Change%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/gcb.17297", "name": "item", "description": "10.1111/gcb.17297", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/gcb.17297"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-05-01T00:00:00Z"}}, {"id": "10.1111/nph.14705", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:17:53Z", "type": "Journal Article", "created": "2017-07-31", "title": "High\u2010resolution synchrotron imaging shows that root hairs influence rhizosphere soil structure formation", "description": "Summary<p>   <p>In this paper, we provide direct evidence of the importance of root hairs on pore structure development at the root\uffe2\uff80\uff93soil interface during the early stage of crop establishment.</p>  <p>This was achieved by use of high\uffe2\uff80\uff90resolution (c. 5\uffc2\uffa0\uffce\uffbcm) synchrotron radiation computed tomography (SRCT) to visualise both the structure of root hairs and the soil pore structure in plant\uffe2\uff80\uff93soil microcosms. Two contrasting genotypes of barley (Hordeum vulgare), with and without root hairs, were grown for 8\uffc2\uffa0d in microcosms packed with sandy loam soil at 1.2\uffc2\uffa0g\uffc2\uffa0cm\uffe2\uff88\uff923 dry bulk density. Root hairs were visualised within air\uffe2\uff80\uff90filled pore spaces, but not in the fine\uffe2\uff80\uff90textured soil regions.</p>  <p>We found that the genotype with root hairs significantly altered the porosity and connectivity of the detectable pore space (&gt;\uffc2\uffa05\uffc2\uffa0\uffce\uffbcm) in the rhizosphere, as compared with the no\uffe2\uff80\uff90hair mutants. Both genotypes showed decreasing pore space between 0.8 and 0.1\uffc2\uffa0mm from the root surface. Interestingly the root\uffe2\uff80\uff90hair\uffe2\uff80\uff90bearing genotype had a significantly greater soil pore volume\uffe2\uff80\uff90fraction at the root\uffe2\uff80\uff93soil interface.</p>  <p>Effects of pore structure on diffusion and permeability were estimated to be functionally insignificant under saturated conditions when simulated using image\uffe2\uff80\uff90based modelling.</p>  </p", "keywords": ["construction", "EP/M020355/1", "QH301 Biology", "non-invasive imaging", "Plant Roots", "630", "root hairs", "noninvasive imaging", "QH301", "Soil", "Imaging", " Three-Dimensional", "646809DIMR", "synchrotron", "Computer Simulation", "BB/L025620/1", "BB/J00868/1", "NE/L00237/1", "Hordeum vulgare", "580", "2. Zero hunger", "Civil_env_eng", "Natural Environment Research Council (NERC)", "Research", "Hordeum", "04 agricultural and veterinary sciences", "15. Life on land", "image-based modelling", "Engineering and Physical Sciences Research Council (EPSRC)", "Rhizosphere", "Biotechnology and Biological Sciences Research Council (BBSRC)", "0401 agriculture", " forestry", " and fisheries", "rhizosphere", "soil structure", "synchroton", "Porosity", "BB/P004180/1", "Synchrotrons", "BB/L025825/1", "European Research Council"]}, "links": [{"href": "https://repository.uwl.ac.uk/id/eprint/4981/1/Koebernick_et_al-2017-New_Phytologist.pdf"}, {"href": "https://eprints.soton.ac.uk/412143/1/s1_ln2680534218582232741703867393Hwf_1771574461IdV_16951475526805342FIRST_LOOK_PDF0001.pdf"}, {"href": "https://nph.onlinelibrary.wiley.com/doi/pdf/10.1111/nph.14705"}, {"href": "https://doi.org/10.1111/nph.14705"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/New%20Phytologist", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/nph.14705", "name": "item", "description": "10.1111/nph.14705", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/nph.14705"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-07-31T00:00:00Z"}}, {"id": "10.1890/08-0501.1", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:18:39Z", "type": "Journal Article", "created": "2009-03-18", "title": "Forest Fuel Reduction Alters Fire Severity And Long-Term Carbon Storage In Three Pacific Northwest Ecosystems", "description": "<p>Two forest management objectives being debated in the context of federally managed landscapes in the U.S. Pacific Northwest involve a perceived trade\uffe2\uff80\uff90off between fire restoration and carbon sequestration. The former strategy would reduce fuel (and therefore C) that has accumulated through a century of fire suppression and exclusion which has led to extreme fire risk in some areas. The latter strategy would manage forests for enhanced C sequestration as a method of reducing atmospheric CO2and associated threats from global climate change. We explored the trade\uffe2\uff80\uff90off between these two strategies by employing a forest ecosystem simulation model, STANDCARB, to examine the effects of fuel reduction on fire severity and the resulting long\uffe2\uff80\uff90term C dynamics among three Pacific Northwest ecosystems: the east Cascades ponderosa pine forests, the west Cascades western hemlock\uffe2\uff80\uff93Douglas\uffe2\uff80\uff90fir forests, and the Coast Range western hemlock\uffe2\uff80\uff93Sitka spruce forests. Our simulations indicate that fuel reduction treatments in these ecosystems consistently reduced fire severity. However, reducing the fraction by which C is lost in a wildfire requires the removal of a much greater amount of C, since most of the C stored in forest biomass (stem wood, branches, coarse woody debris) remains unconsumed even by high\uffe2\uff80\uff90severity wildfires. For this reason, all of the fuel reduction treatments simulated for the west Cascades and Coast Range ecosystems as well as most of the treatments simulated for the east Cascades resulted in a reduced mean stand C storage. One suggested method of compensating for such losses in C storage is to utilize C harvested in fuel reduction treatments as biofuels. Our analysis indicates that this will not be an effective strategy in the west Cascades and Coast Range over the next 100 years. We suggest that forest management plans aimed solely at ameliorating increases in atmospheric CO2should forgo fuel reduction treatments in these ecosystems, with the possible exception of some east Cascades ponderosa pine stands with uncharacteristic levels of understory fuel accumulation. Balancing a demand for maximal landscape C storage with the demand for reduced wildfire severity will likely require treatments to be applied strategically throughout the landscape rather than indiscriminately treating all stands.</p>", "keywords": ["Greenhouse Effect", "0106 biological sciences", "Bioelectric Energy Sources", "Forestry", "Carbon Dioxide", "15. Life on land", "16. Peace & justice", "Models", " Biological", "01 natural sciences", "7. Clean energy", "Carbon", "Fires", "Pseudotsuga", "Pinus ponderosa", "Oregon", "13. Climate action", "Computer Simulation", "Picea", "Ecosystem", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1890/08-0501.1"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecological%20Applications", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1890/08-0501.1", "name": "item", "description": "10.1890/08-0501.1", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1890/08-0501.1"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2009-04-01T00:00:00Z"}}, {"id": "10.1890/15-0337", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:18:40Z", "type": "Journal Article", "created": "2015-07-01", "title": "Restoring Forest Structure And Process Stabilizes Forest Carbon In Wildfire-Prone Southwestern Ponderosa Pine Forests", "description": "Abstract<p>Changing climate and a legacy of fire\uffe2\uff80\uff90exclusion have increased the probability of high\uffe2\uff80\uff90severity wildfire, leading to an increased risk of forest carbon loss in ponderosa pine forests in the southwesternUSA. Efforts to reduce high\uffe2\uff80\uff90severity fire risk through forest thinning and prescribed burning require both the removal and emission of carbon from these forests, and any potential carbon benefits from treatment may depend on the occurrence of wildfire. We sought to determine how forest treatments alter the effects of stochastic wildfire events on the forest carbon balance. We modeled three treatments (control, thin\uffe2\uff80\uff90only, and thin and burn) with and without the occurrence of wildfire. We evaluated how two different probabilities of wildfire occurrence, 1% and 2% per year, might alter the carbon balance of treatments. In the absence of wildfire, we found that thinning and burning treatments initially reduced total ecosystem carbon (TEC) and increased net ecosystem carbon balance (NECB). In the presence of wildfire, the thin and burn treatmentTECsurpassed that of the control in year 40 at 2%/yr wildfire probability, and in year 51 at 1%/yr wildfire probability.NECBin the presence of wildfire showed a similar response to the no\uffe2\uff80\uff90wildfire scenarios: both thin\uffe2\uff80\uff90only and thin and burn treatments increased the C sink. Treatments increasedTECby reducing both mean wildfire severity and its variability. While the carbon balance of treatments may differ in more productive forest types, the carbon balance benefits from restoring forest structure and fire in southwestern ponderosa pine forests are clear.</p>", "keywords": ["0106 biological sciences", "13. Climate action", "Arizona", "Computer Simulation", "Forests", "15. Life on land", "Models", " Biological", "01 natural sciences", "Carbon", "Fires", "Pinus ponderosa", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1890/15-0337"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecological%20Applications", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1890/15-0337", "name": "item", "description": "10.1890/15-0337", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1890/15-0337"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2015-07-01T00:00:00Z"}}, {"id": "10.5194/acp-21-8127-2021", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:19:55Z", "type": "Journal Article", "created": "2021-05-27", "title": "Improved representation of the global dust cycle using observational constraints on dust properties and abundance", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Abstract. Even though desert dust is the most abundant aerosol by mass in Earth's atmosphere, atmospheric models struggle to accurately represent its spatial and temporal distribution. These model errors are partially caused by fundamental difficulties in simulating dust emission in coarse-resolution models and in accurately representing dust microphysical properties. Here we mitigate these problems by developing a new methodology that yields an improved representation of the global dust cycle. We present an analytical framework that uses inverse modeling to integrate an ensemble of global model simulations with observational constraints on the dust size distribution, extinction efficiency, and regional dust aerosol optical depth. We then compare the inverse model results against independent measurements of dust surface concentration and deposition flux and find that errors are reduced by approximately a factor of 2\u00a0relative to current model simulations of the Northern Hemisphere dust cycle. The inverse model results show smaller improvements in the less dusty Southern Hemisphere, most likely because both the model simulations and the observational constraints used in the inverse model are less accurate. On a global basis, we find that the emission flux of dust with a geometric diameter up to 20\u2009\u00b5m (PM20) is approximately 5000\u2009Tg\u2009yr\u22121, which is greater than most models account for. This larger PM20 dust flux is needed to match observational constraints showing a large atmospheric loading of coarse dust. We obtain gridded datasets of dust emission, vertically integrated loading, dust aerosol optical depth, (surface) concentration, and wet and dry deposition fluxes that are resolved by season and particle size. As our results indicate that this dataset is more accurate than current model simulations and the MERRA-2 dust reanalysis product, it can be used to improve quantifications of dust impacts on the Earth system.                     </p></article>", "keywords": ["Atmospheric sciences", "550", "QC1-999", "\u00c0rees tem\u00e0tiques de la UPC::Enginyeria agroaliment\u00e0ria::Ci\u00e8ncies de la terra i de la vida", "Dust emissions", "01 natural sciences", "Earth system -- environmental sciences", "Atmospheric Sciences", "Dust; Aerosol; Climate Models; Earth System Models;", "Atmospheric models", "Simulaci\u00f3 per ordinador", "Meteorology & Atmospheric Sciences", "Atmospheric model simulations", "QD1-999", "Earth system", "0105 earth and related environmental sciences", "[SDU.OCEAN]Sciences of the Universe [physics]/Ocean", "info:eu-repo/classification/ddc/550", "Atmosphere", "Climate change science", "ddc:550", "[SDU.OCEAN] Sciences of the Universe [physics]/Ocean", " Atmosphere", "Physics", "Dust", "Computer simulation", "15. Life on land", "Atmosfera -- Aspectes ambientals", "520", "[SDU.ENVI] Sciences of the Universe [physics]/Continental interfaces", " environment", "Climate Action", "Earth sciences", "Chemistry", "Model simulation", "13. Climate action", ":Enginyeria agroaliment\u00e0ria::Ci\u00e8ncies de la terra i de la vida [\u00c0rees tem\u00e0tiques de la UPC]", "Earth Sciences", "\u00c0rees tem\u00e0tiques de la UPC::Desenvolupament hum\u00e0 i sostenible::Degradaci\u00f3 ambiental::Contaminaci\u00f3 atmosf\u00e8rica", "Aerosols--Measurement", "Desert dust", "[SDU.ENVI]Sciences of the Universe [physics]/Continental interfaces", "environment", "Astronomical and Space Sciences", ":Desenvolupament hum\u00e0 i sostenible::Degradaci\u00f3 ambiental::Contaminaci\u00f3 atmosf\u00e8rica [\u00c0rees tem\u00e0tiques de la UPC]"]}, "links": [{"href": "https://boa.unimib.it/bitstream/10281/321612/2/10281-321612_VoR.pdf"}, {"href": "https://acp.copernicus.org/articles/21/8127/2021/acp-21-8127-2021.pdf"}, {"href": "https://acp.copernicus.org/articles/21/8127/2021/acp-21-8127-2021-supplement.pdf"}, {"href": "https://escholarship.org/content/qt5g7457v8/qt5g7457v8.pdf"}, {"href": "https://doi.org/10.5194/acp-21-8127-2021"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Atmospheric%20Chemistry%20and%20Physics", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.5194/acp-21-8127-2021", "name": "item", "description": "10.5194/acp-21-8127-2021", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5194/acp-21-8127-2021"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-11-23T00:00:00Z"}}, {"id": "20.500.11820/03f81a44-477a-4a8c-b34d-85892c85bd6f", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:22:35Z", "type": "Journal Article", "created": "2017-10-13", "title": "An Explicit Structural Model of Root Hair and Soil Interactions Parameterised by Synchrotron X-ray Computed Tomography", "description": "The rhizosphere is a zone of fundamental importance for understanding the dynamics of nutrient acquisition by plant roots. The canonical difficulty of experimentally investigating the rhizosphere led long ago to the adoption of mathematical models, the most sophisticated of which now incorporate explicit representations of root hairs and rhizosphere soil. Mathematical upscaling regimes, such as homogenisation, offer the possibility of incorporating into larger-scale models the important mechanistic processes occurring at the rhizosphere scale. However, we lack concrete descriptions of all the features required to fully parameterise models at the rhizosphere scale. By combining synchrotron X-ray computed tomography (SRXCT) and a novel root growth assay, we derive a three-dimensional description of rhizosphere soil structure suitable for use in multi-scale modelling frameworks. We describe an approach to mitigate sub-optimal root hair detection via structural root hair growth modelling. The growth model is explicitly parameterised with SRXCT data and simulates three-dimensional root hair ideotypes in silico, which are suitable for both ideotypic analysis and parameterisation of 3D geometry in mathematical models. The study considers different hypothetical conditions governing root hair interactions with soil matrices, with their respective effects on hair morphology being compared between idealised and image-derived soil/root geometries. The studies in idealised geometries suggest that packing arrangement of soil affects hair tortuosity more than the particle diameter. Results in field-derived soil suggest that hair access to poorly mobile nutrients is particularly sensitive to the physical interaction between the growing hairs and the phase of the soil in which soil water is present (i.e. the hydrated textural phase). The general trends in fluid-coincident hair length with distance from the root, and their dependence on hair/soil interaction mechanisms, are conserved across Cartesian and cylindrical geometries.", "keywords": ["Plant biology", "2. Zero hunger", "0301 basic medicine", "0303 health sciences", "X-ray CT", "Biomedical imaging and signal processing", "Mathematical Concepts", "15. Life on land", "Models", " Biological", "Plant Roots", "root hairs", "Soil", "03 medical and health sciences", "Imaging", " Three-Dimensional", "in silico", "structural modelling", "synchrotron", "Rhizosphere", "Original Article", "Computer Simulation", "rhizosphere", "Tomography", " X-Ray Computed", "Synchrotrons"]}, "links": [{"href": "http://link.springer.com/content/pdf/10.1007/s11538-017-0350-x.pdf"}, {"href": "https://doi.org/20.500.11820/03f81a44-477a-4a8c-b34d-85892c85bd6f"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Bulletin%20of%20Mathematical%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "20.500.11820/03f81a44-477a-4a8c-b34d-85892c85bd6f", "name": "item", "description": "20.500.11820/03f81a44-477a-4a8c-b34d-85892c85bd6f", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/20.500.11820/03f81a44-477a-4a8c-b34d-85892c85bd6f"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-10-13T00:00:00Z"}}, {"id": "10281/321612", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:22:08Z", "type": "Journal Article", "created": "2021-05-27", "title": "Improved representation of the global dust cycle using observational constraints on dust properties and abundance", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Abstract. Even though desert dust is the most abundant aerosol by mass in Earth's atmosphere, atmospheric models struggle to accurately represent its spatial and temporal distribution. These model errors are partially caused by fundamental difficulties in simulating dust emission in coarse-resolution models and in accurately representing dust microphysical properties. Here we mitigate these problems by developing a new methodology that yields an improved representation of the global dust cycle. We present an analytical framework that uses inverse modeling to integrate an ensemble of global model simulations with observational constraints on the dust size distribution, extinction efficiency, and regional dust aerosol optical depth. We then compare the inverse model results against independent measurements of dust surface concentration and deposition flux and find that errors are reduced by approximately a factor of 2\u00a0relative to current model simulations of the Northern Hemisphere dust cycle. The inverse model results show smaller improvements in the less dusty Southern Hemisphere, most likely because both the model simulations and the observational constraints used in the inverse model are less accurate. On a global basis, we find that the emission flux of dust with a geometric diameter up to 20\u2009\u00b5m (PM20) is approximately 5000\u2009Tg\u2009yr\u22121, which is greater than most models account for. This larger PM20 dust flux is needed to match observational constraints showing a large atmospheric loading of coarse dust. We obtain gridded datasets of dust emission, vertically integrated loading, dust aerosol optical depth, (surface) concentration, and wet and dry deposition fluxes that are resolved by season and particle size. As our results indicate that this dataset is more accurate than current model simulations and the MERRA-2 dust reanalysis product, it can be used to improve quantifications of dust impacts on the Earth system.</p></article>", "keywords": ["Atmospheric sciences", "550", "QC1-999", "\u00c0rees tem\u00e0tiques de la UPC::Enginyeria agroaliment\u00e0ria::Ci\u00e8ncies de la terra i de la vida", "Dust emissions", "01 natural sciences", "Earth system -- environmental sciences", "Atmospheric Sciences", "Dust; Aerosol; Climate Models; Earth System Models;", "Atmospheric models", "Simulaci\u00f3 per ordinador", "Meteorology & Atmospheric Sciences", "Atmospheric model simulations", "QD1-999", "Earth system", "0105 earth and related environmental sciences", "[SDU.OCEAN]Sciences of the Universe [physics]/Ocean", "info:eu-repo/classification/ddc/550", "Atmosphere", "Climate change science", "ddc:550", "[SDU.OCEAN] Sciences of the Universe [physics]/Ocean", " Atmosphere", "Physics", "Dust", "Computer simulation", "15. Life on land", "Atmosfera -- Aspectes ambientals", "520", "[SDU.ENVI] Sciences of the Universe [physics]/Continental interfaces", " environment", "Climate Action", "Earth sciences", "Chemistry", "Model simulation", "13. Climate action", ":Enginyeria agroaliment\u00e0ria::Ci\u00e8ncies de la terra i de la vida [\u00c0rees tem\u00e0tiques de la UPC]", "Earth Sciences", "\u00c0rees tem\u00e0tiques de la UPC::Desenvolupament hum\u00e0 i sostenible::Degradaci\u00f3 ambiental::Contaminaci\u00f3 atmosf\u00e8rica", "Aerosols--Measurement", "Desert dust", "[SDU.ENVI]Sciences of the Universe [physics]/Continental interfaces", "environment", "Astronomical and Space Sciences", ":Desenvolupament hum\u00e0 i sostenible::Degradaci\u00f3 ambiental::Contaminaci\u00f3 atmosf\u00e8rica [\u00c0rees tem\u00e0tiques de la UPC]"]}, "links": [{"href": "https://boa.unimib.it/bitstream/10281/321612/2/10281-321612_VoR.pdf"}, {"href": "https://acp.copernicus.org/articles/21/8127/2021/acp-21-8127-2021.pdf"}, {"href": "https://acp.copernicus.org/articles/21/8127/2021/acp-21-8127-2021-supplement.pdf"}, {"href": "https://escholarship.org/content/qt5g7457v8/qt5g7457v8.pdf"}, {"href": "https://doi.org/10281/321612"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Atmospheric%20Chemistry%20and%20Physics", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10281/321612", "name": "item", "description": "10281/321612", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10281/321612"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-11-23T00:00:00Z"}}, {"id": "21.11116/0000-000F-4521-E", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:22:42Z", "type": "Journal Article", "created": "2024-05-13", "title": "Convergence in simulating global soil organic carbon by structurally different models after data assimilation", "description": "Abstract<p>Current biogeochemical models produce carbon\uffe2\uff80\uff93climate feedback projections with large uncertainties, often attributed to their structural differences when simulating soil organic carbon (SOC) dynamics worldwide. However, choices of model parameter values that quantify the strength and represent properties of different soil carbon cycle processes could also contribute to model simulation uncertainties. Here, we demonstrate the critical role of using common observational data in reducing model uncertainty in estimates of global SOC storage. Two structurally different models featuring distinctive carbon pools, decomposition kinetics, and carbon transfer pathways simulate opposite global SOC distributions with their customary parameter values yet converge to similar results after being informed by the same global SOC database using a data assimilation approach. The converged spatial SOC simulations result from similar simulations in key model components such as carbon transfer efficiency, baseline decomposition rate, and environmental effects on carbon fluxes by these two models after data assimilation. Moreover, data assimilation results suggest equally effective simulations of SOC using models following either first\uffe2\uff80\uff90order or Michaelis\uffe2\uff80\uff93Menten kinetics at the global scale. Nevertheless, a wider range of data with high\uffe2\uff80\uff90quality control and assurance are needed to further constrain SOC dynamics simulations and reduce unconstrained parameters. New sets of data, such as microbial genomics\uffe2\uff80\uff90function relationships, may also suggest novel structures to account for in future model development. Overall, our results highlight the importance of observational data in informing model development and constraining model predictions.</p", "keywords": ["Soil", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "Computer Simulation", "04 agricultural and veterinary sciences", "Models", " Theoretical", "15. Life on land", "01 natural sciences", "Carbon", "Carbon Cycle", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://onlinelibrary.wiley.com/doi/pdf/10.1111/gcb.17297"}, {"href": "https://doi.org/21.11116/0000-000F-4521-E"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Global%20Change%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "21.11116/0000-000F-4521-E", "name": "item", "description": "21.11116/0000-000F-4521-E", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/21.11116/0000-000F-4521-E"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-05-01T00:00:00Z"}}, {"id": "2164/9249", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:22:45Z", "type": "Journal Article", "created": "2017-07-31", "title": "High\u2010resolution synchrotron imaging shows that root hairs influence rhizosphere soil structure formation", "description": "Summary<p>   <p>In this paper, we provide direct evidence of the importance of root hairs on pore structure development at the root\uffe2\uff80\uff93soil interface during the early stage of crop establishment.</p>  <p>This was achieved by use of high\uffe2\uff80\uff90resolution (c. 5\uffc2\uffa0\uffce\uffbcm) synchrotron radiation computed tomography (SRCT) to visualise both the structure of root hairs and the soil pore structure in plant\uffe2\uff80\uff93soil microcosms. Two contrasting genotypes of barley (Hordeum vulgare), with and without root hairs, were grown for 8\uffc2\uffa0d in microcosms packed with sandy loam soil at 1.2\uffc2\uffa0g\uffc2\uffa0cm\uffe2\uff88\uff923 dry bulk density. Root hairs were visualised within air\uffe2\uff80\uff90filled pore spaces, but not in the fine\uffe2\uff80\uff90textured soil regions.</p>  <p>We found that the genotype with root hairs significantly altered the porosity and connectivity of the detectable pore space (&gt;\uffc2\uffa05\uffc2\uffa0\uffce\uffbcm) in the rhizosphere, as compared with the no\uffe2\uff80\uff90hair mutants. Both genotypes showed decreasing pore space between 0.8 and 0.1\uffc2\uffa0mm from the root surface. Interestingly the root\uffe2\uff80\uff90hair\uffe2\uff80\uff90bearing genotype had a significantly greater soil pore volume\uffe2\uff80\uff90fraction at the root\uffe2\uff80\uff93soil interface.</p>  <p>Effects of pore structure on diffusion and permeability were estimated to be functionally insignificant under saturated conditions when simulated using image\uffe2\uff80\uff90based modelling.</p>  </p", "keywords": ["construction", "EP/M020355/1", "QH301 Biology", "non-invasive imaging", "Plant Roots", "630", "root hairs", "noninvasive imaging", "QH301", "Soil", "Imaging", " Three-Dimensional", "646809DIMR", "synchrotron", "Computer Simulation", "BB/L025620/1", "BB/J00868/1", "NE/L00237/1", "Hordeum vulgare", "580", "2. Zero hunger", "Civil_env_eng", "Natural Environment Research Council (NERC)", "Research", "Hordeum", "04 agricultural and veterinary sciences", "15. Life on land", "image-based modelling", "Engineering and Physical Sciences Research Council (EPSRC)", "Rhizosphere", "Biotechnology and Biological Sciences Research Council (BBSRC)", "0401 agriculture", " forestry", " and fisheries", "rhizosphere", "soil structure", "synchroton", "Porosity", "BB/P004180/1", "Synchrotrons", "BB/L025825/1", "European Research Council"]}, "links": [{"href": "https://repository.uwl.ac.uk/id/eprint/4981/1/Koebernick_et_al-2017-New_Phytologist.pdf"}, {"href": "https://eprints.soton.ac.uk/412143/1/s1_ln2680534218582232741703867393Hwf_1771574461IdV_16951475526805342FIRST_LOOK_PDF0001.pdf"}, {"href": "https://nph.onlinelibrary.wiley.com/doi/pdf/10.1111/nph.14705"}, {"href": "https://doi.org/2164/9249"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/New%20Phytologist", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "2164/9249", "name": "item", "description": "2164/9249", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/2164/9249"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-07-31T00:00:00Z"}}, {"id": "PMC11199918", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-21T16:24:38Z", "type": "Journal Article", "created": "2024-04-18", "title": "Parameter grouping and co-estimation in physiologically based kinetic models using genetic algorithms", "description": "Abstract                <p>Physiologically based kinetic (PBK) models are widely used in pharmacology and toxicology for predicting the internal disposition of substances upon exposure, voluntarily or not. Due to their complexity, a large number of model parameters need to be estimated, either through in silico tools, in vitro experiments, or by fitting the model to in vivo data. In the latter case, fitting complex structural models on in vivo data can result in overparameterization and produce unrealistic parameter estimates. To address these issues, we propose a novel parameter grouping approach, which reduces the parametric space by co-estimating groups of parameters across compartments. Grouping of parameters is performed using genetic algorithms and is fully automated, based on a novel goodness-of-fit metric. To illustrate the practical application of the proposed methodology, two case studies were conducted. The first case study demonstrates the development of a new PBK model, while the second focuses on model refinement. In the first case study, a PBK model was developed to elucidate the biodistribution of titanium dioxide (TiO2) nanoparticles in rats following intravenous injection. A variety of parameter estimation schemes were employed. Comparative analysis based on goodness-of-fit metrics demonstrated that the proposed methodology yields models that outperform standard estimation approaches, while utilizing a reduced number of parameters. In the second case study, an existing PBK model for perfluorooctanoic acid (PFOA) in rats was extended to incorporate additional tissues, providing a more comprehensive portrayal of PFOA biodistribution. Both models were validated through independent in vivo studies to ensure their reliability.</p", "keywords": ["Titanium", "Male", "0301 basic medicine", "Fluorocarbons", "Models", " Biological", "Biotransformation", " Toxicokinetics", " and Pharmacokinetics", "Rats", "Kinetics", "03 medical and health sciences", "0302 clinical medicine", "Animals", "Nanoparticles", "Tissue Distribution", "Computer Simulation", "Caprylates", "Algorithms"]}, "links": [{"href": "https://academic.oup.com/toxsci/article-pdf/200/1/31/58318724/kfae051.pdf"}, {"href": "https://doi.org/PMC11199918"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Toxicological%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "PMC11199918", "name": "item", "description": "PMC11199918", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PMC11199918"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-04-19T00:00:00Z"}}], "links": [{"rel": "self", "type": "application/geo+json", "title": "This document as GeoJSON", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=Computer+Simulation&f=json", "hreflang": "en-US"}, {"rel": "alternate", "type": "text/html", "title": "This document as HTML", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=Computer+Simulation&f=html", "hreflang": "en-US"}, {"rel": "collection", "type": "application/json", "title": "Collection URL", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main", "hreflang": "en-US"}, {"type": "application/geo+json", "rel": "first", "title": "items (first)", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=Computer+Simulation&", "hreflang": "en-US"}, {"rel": "last", "type": "application/geo+json", "title": "items (last)", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=Computer+Simulation&offset=19", "hreflang": "en-US"}], "numberMatched": 19, "numberReturned": 19, "distributedFeatures": [], "timeStamp": "2026-09-22T15:00:40.396982Z"}