Satellite remote sensing technology has been widely used to estimate surface soil moisture. Numerous efforts have been devoted to develop global soil moisture products. However, these global soil moisture products, normally retrieved from microwave remote sensing data, are typically not suitable for regional hydrological and agricultural applications such as irrigation management and flood predictions, due to their coarse spatial resolution. Therefore, various downscaling methods have been proposed to improve the coarse resolution soil moisture products. The purpose of this paper is to review existing methods for downscaling satellite remotely sensed soil moisture. These methods are assessed and compared in terms of their advantages and limitations. This review also provides the accuracy level of these methods based on published validation studies. In the final part, problems and future trends associated with these methods are analyzed.Growing environmental concern sparks renewed interest in the sustainable production of (bio)materials that can replace oil\uffe2\uff80\uff90derived goods. Polyhydroxyalkanoates (PHAs) are isotactic polymers that play a critical role in the central metabolism of producer bacteria, as they act as dynamic reservoirs of carbon and reducing equivalents. PHAs continue to attract industrial attention as a starting point toward renewable, biodegradable, biocompatible, and versatile thermoplastic and elastomeric materials. Pseudomonas species have been known for long as efficient biopolymer producers, especially for medium\uffe2\uff80\uff90chain\uffe2\uff80\uff90length PHAs. The surge of synthetic biology and metabolic engineering approaches in recent years offers the possibility of exploiting the untapped potential of Pseudomonas cell factories for the production of tailored PHAs. In this article, an overview of the metabolic and regulatory circuits that rule PHA accumulation in Pseudomonas putida is provided, and approaches leading to the biosynthesis of novel polymers (e.g., PHAs including nonbiological chemical elements in their structures) are discussed. The potential of novel PHAs to disrupt existing and future market segments is closer to realization than ever before. The review is concluded by pinpointing challenges that currently hinder the wide adoption of bio\uffe2\uff80\uff90based PHAs, and strategies toward programmable polymer biosynthesis from alternative substrates in engineered P. putida strains are proposed.
", "keywords": ["0301 basic medicine", "2. Zero hunger", "0303 health sciences", "Biopolymer", "PHA", "Pseudomonas putida", "Polyhydroxyalkanoates", "Carbon", "12. Responsible consumption", "03 medical and health sciences", "/dk/atira/pure/sustainabledevelopmentgoals/affordable_and_clean_energy; name=SDG 7 - Affordable and Clean Energy", "Metabolic Engineering", "Pseudomonas", "Pathway engineering", "Metabolic engineering", "Synthetic biology"]}, "links": [{"href": "https://onlinelibrary.wiley.com/doi/pdf/10.1002/biot.202000165"}, {"href": "https://doi.org/10.1002/biot.202000165"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Biotechnology%20Journal", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1002/biot.202000165", "name": "item", "description": "10.1002/biot.202000165", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1002/biot.202000165"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-11-09T00:00:00Z"}}, {"id": "10.1002/essoar.10503814.3", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:14:04Z", "type": "Journal Article", "created": "2020-07-31", "title": "Extreme Precipitation Return Levels for Multiple Durations on a Global Scale", "description": "Quantifying the magnitude and frequency of extreme precipitation events is key in translating climate observations to planning and engineering design. Past efforts have mostly focused on the estima...", "keywords": ["MSWEP", "13. Climate action", "Generalized extreme value distribution", "Peaks-over-threshold", "Precipitation extremes", "Generalized extreme value distribution; Global domain; Metastatistical extreme value distribution; MSWEP; Peaks-over-threshold; Precipitation extremes", "910", "15. Life on land", "01 natural sciences", "Global domain", "Metastatistical extreme value distribution", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://www.research.unipd.it/bitstream/11577/3546209/3/Grundemann%20et%20al_JoH_2023.pdf"}, {"href": "https://doi.org/10.1002/essoar.10503814.3"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20Hydrology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1002/essoar.10503814.3", "name": "item", "description": "10.1002/essoar.10503814.3", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1002/essoar.10503814.3"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-07-31T00:00:00Z"}}, {"id": "10.1002/lno.11606", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:14:09Z", "type": "Journal Article", "created": "2020-09-25", "title": "The relevance of environment vs. composition on dissolved organic matter degradation in freshwaters", "description": "AbstractDissolved organic matter (DOM) composition exerts a direct control on its degradation and subsequent persistence in aquatic ecosystems. Yet, under certain conditions, the degradation patterns of DOM cannot be solely explained by its composition, highlighting the relevance of environmental conditions for DOM degradation. Here, we experimentally assessed the relative influence of composition vs. environment on DOM degradation by performing degradation bioassays using three contrasting DOM sources inoculated with a standardized bacterial inoculum under five distinct environments. The DOM degradation kinetics modeled using reactivity continuum models showed that composition was more important than environment in determining the bulk DOM decay patterns. Changes in DOM composition resulted from the interaction between DOM source and environment. The role of environment was stronger on shaping the bacterial community composition, but the intrinsic nature of the DOM source exerted stronger control on the DOM degradation function.Seed size is one of the major determinants of seed weight and eventually, crop yield. As the global population is increasing beyond the capacity of current food production, enhancing seed size is a key target for crop breeders. Despite the identification of several genes and QTLs, current understanding about the molecular regulation of seed size/weight remains fragmentary. In the present study, we report novel role of a jasmonic acid (JA) signaling repressor, OsJAZ11 controlling rice seed width and weight. Transgenic rice lines overexpressing OsJAZ11 exhibited up to a 14% increase in seed width and ~30% increase in seed weight compared to wild type (WT). Constitutive expression of OsJAZ11 dramatically influenced spikelet morphogenesis leading to extra glume\uffe2\uff80\uff90like structures, open hull, and abnormal numbers of floral organs. Furthermore, overexpression lines accumulated higher JA levels in spikelets and developing seeds. Expression studies uncovered altered expression of JA biosynthesis/signaling and MADS box genes in overexpression lines compared to WT. Yeast two\uffe2\uff80\uff90hybrid and pull\uffe2\uff80\uff90down assays revealed that OsJAZ11 interacts with OsMADS29 and OsMADS68. Remarkably, expression of OsGW7, a key negative regulator of grain size, was significantly reduced in overexpression lines. We propose that OsJAZ11 participates in the regulation of seed size and spikelet development by coordinating the expression of JA\uffe2\uff80\uff90related, OsGW7 and MADS genes.The stabilizing properties of mineral\uffe2\uff80\uff93organic carbon (OC) interactions have been studied in many soil environments (temperate soils, podzol lateritic soils, and paddy soils). Recently, interest in their role in permafrost regions is increasing as permafrost was identified as a hotspot of change. In thawing ice\uffe2\uff80\uff90rich permafrost regions, such as the Yedoma domain, 327\uffe2\uff80\uff93466 Gt of frozen OC is buried in deep sediments. Interactions between minerals and OC are important because OC is located very near the mineral matrix. Mineral surfaces and elements could mitigate recent and future greenhouse gas emissions through physical and/or physicochemical protection of OC. The dynamic changes in redox and pH conditions associated with thermokarst lake formation and drainage trigger metal\uffe2\uff80\uff90oxide dissolution and precipitation, likely influencing OC stabilization and microbial mineralization. However, the influence of thermokarst processes on mineral\uffe2\uff80\uff93OC interactions remains poorly constrained. In this study, we aim to characterize Fe, Mn, Al, and Ca minerals and their potential protective role for OC. Total and selective extractions were used to assess the crystalline and amorphous oxides or complexed metal pools as well as the organic acids found within these pools. We analyzed four sediment cores from an ice\uffe2\uff80\uff90rich permafrost area in Central Yakutia, which were drilled (i) in undisturbed Yedoma uplands, (ii) beneath a recent lake formed within Yedoma deposits, (iii) in a drained thermokarst lake basin, and (iv) beneath a mature thermokarst lake from the early Holocene period. We find a decrease in the amount of reactive Fe, Mn, Al, and Ca in the deposits on lake formation (promoting reduction reactions), and this was largely balanced by an increase in the amount of reactive metals in the deposits on lake drainage (promoting oxidation reactions). We demonstrate an increase in the metal to C molar ratio on thermokarst process, which may indicate an increase in metal\uffe2\uff80\uff93C bindings and could provide a higher protective role against microbial mineralization of organic matter. Finally, we find that an increase in mineral\uffe2\uff80\uff93OC interactions corresponded to a decrease in CO2 and CH4 gas emissions on thermokarst process. Mineral\uffe2\uff80\uff93OC interactions could mitigate greenhouse gas production from permafrost thaw as soon as lake drainage occurs.
", "keywords": ["Yedoma", "ddc:550", "04 agricultural and veterinary sciences", "15. Life on land", "01 natural sciences", "redox processes", "Arctic", "organic carbon stabilization", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "Institut f\u00fcr Geowissenschaften", "thaw", "permafrost", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://onlinelibrary.wiley.com/doi/pdf/10.1002/ppp.2162"}, {"href": "https://doi.org/10.1002/ppp.2162"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Permafrost%20and%20Periglacial%20Processes", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1002/ppp.2162", "name": "item", "description": "10.1002/ppp.2162", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1002/ppp.2162"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-07-24T00:00:00Z"}}, {"id": "10.1007/978-3-030-13068-8_80", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:14:11Z", "type": "Report", "created": "2019-09-18", "title": "CO2 Biofixation by Chlamydomonas reinhardtii Using Different CO2 Dosing Strategies", "description": "The CO2 sequestration potential of the green microalga Chlamydomonas reinhardtii was investigated with different CO2 dosing strategies. A gas mixture containing 30% CO2 and 70% N2 was used in these experiments in order to simulate the treatment of flue gases from various industries containing high concentrations of CO2. Alongside the CO2 sequestration, the results suggest that the microalgal biomass was rich in carbohydrates and lipids, and thus suitable to be used for biofuel production.", "keywords": ["Periodic CO2 dosing", "CO2 sequestration", "biochemical profiles", "Periodic CO2 dosing", " CO2 sequestration", " biochemical profiles", " chlorophyll", " Chlamydomonas reinhardtii", "chlorophyll", "7. Clean energy", "Chlamydomonas reinhardtii", "6. Clean water"]}, "links": [{"href": "https://www.iris.unina.it/bitstream/11588/726038/2/Version%20submitted%20for%20IRIS.pdf"}, {"href": "http://link.springer.com/content/pdf/10.1007/978-3-030-13068-8"}, {"href": "http://link.springer.com/content/pdf/10.1007/978-3-030-13068-8_80"}, {"href": "https://doi.org/10.1007/978-3-030-13068-8_80"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/978-3-030-13068-8_80", "name": "item", "description": "10.1007/978-3-030-13068-8_80", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/978-3-030-13068-8_80"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-09-19T00:00:00Z"}}, {"id": "10.1007/s00253-020-10811-9", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:14:19Z", "type": "Journal Article", "created": "2020-08-13", "title": "Industrial biotechnology of Pseudomonas putida: advances and prospects", "description": "AbstractPseudomonas putidais a Gram-negative, rod-shaped bacterium that can be encountered in diverse ecological habitats. This ubiquity is traced to its remarkably versatile metabolism, adapted to withstand physicochemical stress, and the capacity to thrive in harsh environments. Owing to these characteristics, there is a growing interest in this microbe for industrial use, and the corresponding research has made rapid progress in recent years. Hereby, strong drivers are the exploitation of cheap renewable feedstocks and waste streams to produce value-added chemicals and the steady progress in genetic strain engineering and systems biology understanding of this bacterium. Here, we summarize the recent advances and prospects in genetic engineering, systems and synthetic biology, and applications ofP. putidaas a cell factory.
Key points\uffe2\uff80\uffa2 Pseudomonas putida advances to a global industrial cell factory.
\uffe2\uff80\uffa2 Novel tools enable system-wide understanding and streamlined genomic engineering.
\uffe2\uff80\uffa2 Applications of P. putida range from bioeconomy chemicals to biosynthetic drugs.
", "keywords": ["0301 basic medicine", "ddc:500", "0303 health sciences", "Pseudomonas putida", "EDEMP cycle", "PHA", "Systems Biology", "500", "Genomics", "Mini-Review", "Bioeconomy", "Bacterial chassis", "Lignin", "03 medical and health sciences", "/dk/atira/pure/sustainabledevelopmentgoals/affordable_and_clean_energy; name=SDG 7 - Affordable and Clean Energy", "Microbial cell factory", "13. Climate action", "Biocatalysis", "Synthetic Biology", "KT2440", "Metabolic engineering", "Biotransformation", "Synthetic biology", "Biotechnology"]}, "links": [{"href": "https://link.springer.com/content/pdf/10.1007/s00253-020-10811-9.pdf"}, {"href": "https://doi.org/10.1007/s00253-020-10811-9"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Microbiology%20and%20Biotechnology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00253-020-10811-9", "name": "item", "description": "10.1007/s00253-020-10811-9", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00253-020-10811-9"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-08-13T00:00:00Z"}}, {"id": "10.1007/s00253-019-09689-z", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:14:19Z", "type": "Journal Article", "created": "2019-02-20", "title": "Distribution of Oenococcus oeni populations in natural habitats", "description": "Oenococcus oeni is the lactic acid bacteria species most commonly encountered in wine, where it develops after the alcoholic fermentation and achieves the malolactic fermentation that is needed to improve the quality of most wines. O. oeni is abundant in the oenological environment as well as in apple cider and kombucha, whereas it is a minor species in the natural environment. Numerous studies have shown that there is a great diversity of strains in each wine region and in each product or type of wine. Recently, genomic studies have shed new light on the species diversity, population structure, and environmental distribution. They revealed that O. oeni has unique genomic features that have contributed to its fast evolution and adaptation to the enological environment. They have also unveiled the phylogenetic diversity and genomic properties of strains that develop in different regions or different products. This review explores the distribution of O. oeni and the diversity of strains in natural habitats.", "keywords": ["0106 biological sciences", "0301 basic medicine", "570", "Evolution", "[SPI.GPROC] Engineering Sciences [physics]/Chemical and Process Engineering", "590", "Wine", "01 natural sciences", "Domestication", "Evolution", " Molecular", "03 medical and health sciences", "[SDV.IDA]Life Sciences [q-bio]/Food engineering", "MD Multidisciplinary", "[SPI.GPROC]Engineering Sciences [physics]/Chemical and Process Engineering", "Ecosystem", "Oenococcus", "Phylogeny", "0303 health sciences", "Malolactic fermentation", "Genetic Variation", "Genomics", "[SDV.IDA] Life Sciences [q-bio]/Food engineering", "Mini-Review", "Fermentation", "Oenococcus oeni", "Biotechnology"]}, "links": [{"href": "http://link.springer.com/content/pdf/10.1007/s00253-019-09689-z.pdf"}, {"href": "https://doi.org/10.1007/s00253-019-09689-z"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Microbiology%20and%20Biotechnology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00253-019-09689-z", "name": "item", "description": "10.1007/s00253-019-09689-z", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00253-019-09689-z"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-02-20T00:00:00Z"}}, {"id": "10.1007/s00442-002-1117-z", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:14:24Z", "type": "Journal Article", "created": "2014-12-22", "title": "Nitrogen Limitation Of Growth And Nutrient Dynamics In A Disturbed Mangrove Forest, Indian River Lagoon, Florida", "description": "The objectives of this study were to determine effects of nutrient enrichment on plant growth, nutrient dynamics, and photosynthesis in a disturbed mangrove forest in an abandoned mosquito impoundment in Florida. Impounding altered the hydrology and soil chemistry of the site. In 1997, we established a factorial experiment along a tree-height gradient with three zones, i.e., fringe, transition, dwarf, and three fertilizer treatment levels, i.e., nitrogen (N), phosphorus (P), control, in Mosquito Impoundment 23 on the eastern side of Indian River. Transects traversed the forest perpendicular to the shoreline, from a Rhizophora mangle-dominated fringe through an Avicennia germinans stand of intermediate height, and into a scrub or dwarf stand of A. germinans in the hinterland. Growth rates increased significantly in response to N fertilization. Our growth data indicated that this site is N-limited along the tree-height gradient. After 2 years of N addition, dwarf trees resembled vigorously growing saplings. Addition of N also affected internal dynamics of N and P and caused increases in rates of photosynthesis. These findings contrast with results for a R. mangle-dominated forest in Belize where the fringe is N-limited, but the dwarf zone is P-limited and the transition zone is co-limited by N and P. This study demonstrated that patterns of nutrient limitation in mangrove ecosystems are complex, that not all processes respond similarly to the same nutrient, and that similar habitats are not limited by the same nutrient when different mangrove forests are compared.", "keywords": ["0106 biological sciences", "Leaves", "Nitrogen", "Fresh-water", "Electron-transport", "01 natural sciences", "Rhizophora-mangle", "Trees", "Sediments", "Random Allocation", "Soil", "Plant-growth", "0502 Environmental Science and Management", "phosphorus", "Photosynthesis", "Vs. Phosphorus Limitation", "Patterns", "Ecosystem", "disturbance", "580", "photosynthesis", "Ecology", "experiment", "Phosphorus", "15. Life on land", "Belize", "Use Efficiency", "Plant Leaves", "fertilization", "Florida", "resorption", "Gradient", "Avicennia"]}, "links": [{"href": "https://doi.org/10.1007/s00442-002-1117-z"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Oecologia", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00442-002-1117-z", "name": "item", "description": "10.1007/s00442-002-1117-z", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00442-002-1117-z"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2003-01-08T00:00:00Z"}}, {"id": "10.1007/s10021-013-9690-z", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:14:29Z", "type": "Journal Article", "created": "2013-06-28", "title": "Pedogenic Thresholds And Soil Process Domains In Basalt-Derived Soils", "description": "Pedogenic thresholds occur where soil properties change abruptly and/or nonlinearly with a small increment in environmental forcing; soil process domains are the regions between thresholds where soils change much more gradually across a large range of environmental forcing. We evaluated thresholds and domains in basalt-derived soils on two rainfall gradients in Hawaii\u2014one from 260 to 3,540 mm/y precipitation on 150,000-year-old substrate, the other from 600 to 3,760 mm/y on 4,100,000-year-old substrate. We identified thresholds associated with the initiation of biological uplift of nutrients at about 700 mm/y on the younger substrate, the depletion of primary minerals at about 2,100 mm/y on the younger and about 900 mm/y on the older substrate, and the initiation of anoxic conditions and associated Fe mobility at about 2,500 mm/y on the older substrate. These thresholds delineated process domains characterized by pedogenic carbonate accumulation and wind erosion (dry young substrate); by weathering and biological uplift of nutrients (intermediate rainfall young substrate and dry old substrate); by surface Fe enrichment and nutrient depletion (wet young substrate and intermediate rainfall old substrate); and by Fe mobilization and loss (wet old substrate). Soils on the older substrate were more highly weathered, lower in total and available P, and characterized by more crystalline clays than otherwise comparable soils on the younger substrate. Prior to European contact, Hawaiian cultivators developed an intensive rainfed agricultural system in the weathering/biological uplift domain on the younger substrate; we suggest that only this domain could support indigenous agricultural intensification in upland soils.", "keywords": ["2. Zero hunger", "Ecology", "biological uplift", "pedogenic threshold", "04 agricultural and veterinary sciences", "Biological Sciences", "15. Life on land", "01 natural sciences", "Hawaii", "gradient", "weathering", "Environmental Chemistry", "0401 agriculture", " forestry", " and fisheries", "indigenous agriculture", "process domain", "Environmental Sciences", "Ecology", " Evolution", " Behavior and Systematics", "basalt-derived soil", "0105 earth and related environmental sciences"], "contacts": [{"organization": "Vitousek, Peter M, Chadwick, Oliver A,", "roles": ["creator"]}]}, "links": [{"href": "https://escholarship.org/content/qt0267w3mm/qt0267w3mm.pdf"}, {"href": "https://doi.org/10.1007/s10021-013-9690-z"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecosystems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s10021-013-9690-z", "name": "item", "description": "10.1007/s10021-013-9690-z", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s10021-013-9690-z"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-06-29T00:00:00Z"}}, {"id": "10.1016/j.envpol.2021.118128", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:15:29Z", "type": "Journal Article", "created": "2021-09-09", "title": "Diagnosis of cadmium contamination in urban and suburban soils using visible-to-near-infrared spectroscopy", "description": "Previous studies have mostly focused on using visible-to-near-infrared spectral technique to quantitatively estimate soil cadmium (Cd) content, whereas little attention has been paid to identifying soil Cd contamination from a perspective of spectral classification. Here, we developed a framework to compare the potential of two spectral transformations (i.e., raw reflectance and continuum removal [CR]), three optimization strategies (i.e., full-spectrum, Boruta feature selection, and synthetic minority over-sampling technique [SMOTE]), and three classification algorithms (i.e., partial least squares discriminant analysis, random forest [RF], and support vector machine) for diagnosing soil Cd contamination. A total of 536 soil samples were collected from urban and suburban areas located in Wuhan City, China. Specifically, Boruta and SMOTE strategies were aimed at selecting the most informative predictors and obtaining balanced training datasets, respectively. Results indicated that soils contaminated by Cd induced decrease in spectral reflectance magnitude. Classification models developed after Boruta and SMOTE strategies out-performed to those from full-spectrum. A diagnose model combining CR preprocessing, SMOTE strategy, and RF algorithm achieved the highest validation accuracy for soil Cd (Kappa = 0.74). This study provides a theoretical reference for rapid identification of and monitoring of soil Cd contamination in urban and suburban areas.", "keywords": ["DIFFUSE-REFLECTANCE SPECTROSCOPY", "HUMAN HEALTH", "PREDICTION", "POTENTIALLY TOXIC ELEMENTS", "Boruta algorithm", "01 natural sciences", "Visible-to-near-infrared spectroscopy", "NIR SPECTROSCOPY", "Soil", "ORGANIC-CARBON", "Machine learning", "11. Sustainability", "Soil Pollutants", "Least-Squares Analysis", "0105 earth and related environmental sciences", "Spectroscopy", " Near-Infrared", "RANDOM FOREST", "Urban and suburban soil Cd contamination", "04 agricultural and veterinary sciences", "15. Life on land", "QUANTITATIVE-ANALYSIS", "6. Clean water", "RIVER DELTA", "13. Climate action", "Earth and Environmental Sciences", "Synthetic minority over-sampling technique", "0401 agriculture", " forestry", " and fisheries", "HEAVY-METAL CONCENTRATIONS", "Cadmium"]}, "links": [{"href": "https://doi.org/10.1016/j.envpol.2021.118128"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Pollution", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.envpol.2021.118128", "name": "item", "description": "10.1016/j.envpol.2021.118128", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.envpol.2021.118128"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-12-01T00:00:00Z"}}, {"id": "10.1016/j.jag.2024.103718", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:15:46Z", "type": "Journal Article", "created": "2024-02-20", "title": "Interseasonal transfer learning for crop mapping using Sentinel-1 data", "description": "Crop maps are highly desired information in modern agriculture as they enable possessors to manage their business in the most optimal way. Usually in remote sensing, crop mapping is performed using satellite images and within-season ground truth samples that are collected in extensive survey campaigns every year, neglecting information and knowledge that past seasons\u2019 classification models provided. This paper assessed different temporal transferring approaches, including transfer learning, together with traditional crop mapping approach to provide an exhaustive comparison. Transferring approaches differed in portion of knowledge utilized from a historical model and that coming from a target season dataset. Three distinct algorithms, Random Forest, Convolutional Neural Network and Transformer, were employed and evaluated using highly dense time series of Sentinel-1 data. Source and target domain were respectively represented by two sets, 2017\u20132020 and 2021 season data, and 9 different crop types were classified. Results showcased that transferring a model has a great potential in crop mapping when little to no ground truth data is available for the target season. However, traditional approach catches up rather quickly and even surpasses transfer learning approach in terms of performance after a certain portion of target domain data is collected. Without target season ground truth data, model transferring can yield modest crop mapping performance of 78% for F1 score, between 84% and 86% F1 score with transfer learning employed in conjunction with limited target season ground truth (i.e. between 120 and 720 parcels), and 88% F1 score at best with traditional approach (ca. 720 parcels). Even though a good discriminatory is found between different crop types, there is still a room for improvement regarding the least represented classes in the dataset. The study significantly contributes to the area of agricultural monitoring and management by demonstrating the effectiveness of transfer learning while lessening the necessity for extensive and labor-intensive data collection, thereby fostering cost and time efficiency. Utilizing Sentinel-1 data, it provides a practical and efficient solution for agricultural analysis worldwide regardless of cloudiness.", "keywords": ["2. Zero hunger", "Physical geography", "Crop mapping", "0211 other engineering and technologies", "04 agricultural and veterinary sciences", "02 engineering and technology", "15. Life on land", "Transfer learning", "GB3-5030", "Environmental sciences", "Sentinel-1", "Pre-trained model", "0401 agriculture", " forestry", " and fisheries", "GE1-350", "Domain"]}, "links": [{"href": "https://doi.org/10.1016/j.jag.2024.103718"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/International%20Journal%20of%20Applied%20Earth%20Observation%20and%20Geoinformation", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.jag.2024.103718", "name": "item", "description": "10.1016/j.jag.2024.103718", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.jag.2024.103718"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-04-01T00:00:00Z"}}, {"id": "10.1016/j.agrformet.2006.01.007", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:15:05Z", "type": "Journal Article", "created": "2006-02-25", "title": "A Multi-Site Analysis Of Random Error In Tower-Based Measurements Of Carbon And Energy Fluxes", "description": "Measured surface-atmosphere fluxes of energy (sensible heat, H, and latent heat, LE) and CO2 (FCO2) represent the \u2018\u2018true\u2019\u2019 flux plus or minus potential random and systematic measurement errors. Here, we use data from seven sites in the AmeriFlux network, including five forested sites (two of which include \u2018\u2018tall tower\u2019\u2019 instrumentation), one grassland site, and one agricultural site, to conduct a cross-site analysis of random flux error. Quantification of this uncertainty is a prerequisite to model-data synthesis (data assimilation) and for defining confidence intervals on annual sums of net ecosystem exchange or making statistically valid comparisons between measurements and model predictions. We differenced paired observations (separated by exactly 24 h, under similar environmental conditions) to infer the characteristics of the random error in measured fluxes. Random flux error more closely follows a double-exponential (Laplace), rather than a normal (Gaussian), distribution, and increase as a linear function of the magnitude of the flux for all three scalar fluxes. Across sites, variation in the random error follows consistent and robust patterns in relation to environmental variables. For example, seasonal differences in the random error for H are small, in contrast to both LE and FCO2, for which the random errors are roughly three-fold larger at the peak of the growing season compared to the dormant season. Random errors also generally scale with Rn (H and LE) and PPFD (FCO2). For FCO2 (but not H or LE), the random error decreases with increasing wind speed. Data from two sites suggest that FCO2 random error may be slightly smaller when a closed-path, rather than open-path, gas analyzer is used.", "keywords": ["Random error", "Flux", "550", "carbon", "Uncertainty", "0207 environmental engineering", "AmeriFlux", "Eddy covariance", "02 engineering and technology", "15. Life on land", "01 natural sciences", "Carbon", "flux", "Measurement error", "13. Climate action", "Natural Resources and Conservation", "Data assimilation", "eddy covariance", "Ameriflux", "uncertainty", "random error", "data assimilation", "measurement error", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1016/j.agrformet.2006.01.007"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Agricultural%20and%20Forest%20Meteorology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.agrformet.2006.01.007", "name": "item", "description": "10.1016/j.agrformet.2006.01.007", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.agrformet.2006.01.007"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2006-01-01T00:00:00Z"}}, {"id": "10.1007/s13201-024-02101-w", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:14:54Z", "type": "Journal Article", "created": "2024-02-20", "title": "Exploration of cephalexin adsorption mechanisms onto bauxite and palygorskite and regeneration of spent adsorbents with cold plasma bubbling", "description": "AbstractThe aim of the present study was the direct comparison of two popular minerals, bauxite and palygorskite, as adsorbents for the removal of cephalexin (CPX) from aqueous solutions and the regeneration of the spent adsorbents through cold atmospheric plasma. Batch kinetics and isotherm studies were carried out to evaluate the effect of contact time, initial CPX concentration, adsorbent dosage, pH and temperature. The adsorbents were characterized by ATR-FTIR, N2 sorption, SEM and XRD, while several isotherm, kinetic and thermodynamic models were evaluated attempting to shed light on the adsorption mechanisms. CPX adsorption on both adsorbents was better described by Langmuir model, with an adsorption capacity of 112.36\uffc2\uffa0mg/g for palygorskite and 11.79\uffc2\uffa0mg/g for bauxite. Thermodynamics revealed the endothermic and the spontaneous character of the process, indicating chemisorption as the main adsorption mechanism for both adsorbents. The pseudo-second-order and the Elovich models fitted satisfactorily the adsorption onto bauxite, while adsorption onto palygorskite was well presented by Weber\uffe2\uff80\uff93Morris model, indicating that pore diffusion is also involved in the process. The adsorption capacity of both minerals decreased significantly after being used for several adsorption cycles and then almost completely recovered (regeneration efficiency was 99.6% and 98% for palygorskite and bauxite, respectively) inside a novel cold plasma microbubble reactor energized by high-voltage nanopulses, revealing the potential of these adsorbents to be reused. In addition to the regeneration of the adsorbents, the cold plasma completely eliminated the CPX transferred from the solid to the aqueous phase during the regeneration process.Caver Web 1.0 is a web server for comprehensive analysis of protein tunnels and channels, and study of the ligands\uffe2\uff80\uff99 transport through these transport pathways. Caver Web is the first interactive tool allowing both the analyses within a single graphical user interface. The server is built on top of the abundantly used tunnel detection tool Caver 3.02 and CaverDock 1.0 enabling the study of the ligand transport. The program is easy-to-use as the only required inputs are a protein structure for a tunnel identification and a list of ligands for the transport analysis. The automated guidance procedures assist the users to set up the calculation in a way to obtain biologically relevant results. The identified tunnels, their properties, energy profiles and trajectories for ligands\uffe2\uff80\uff99 passages can be calculated and visualized. The tool is very fast (2\uffe2\uff80\uff9320 min per job) and is applicable even for virtual screening purposes. Its simple setup and comprehensive graphical user interface make the tool accessible for a broad scientific community. The server is freely available at https://loschmidt.chemi.muni.cz/caverweb.
", "keywords": ["0301 basic medicine", "Internet", "0303 health sciences", "Binding Sites", "BINDING; STABILITY; MECHANISM; MYOGLOBIN; MIGRATION; DYNAMICS; KINETICS; PATHWAY; ENZYMES; SERVER", "Computational Biology", "Ligands", "Protein Structure", " Tertiary", "3. Good health", "Molecular Docking Simulation", "Benchmarking", "User-Computer Interface", "03 medical and health sciences", "Web Server Issue", "Animals", "Humans", "Protein Interaction Domains and Motifs", "Amino Acid Sequence", "Carrier Proteins", "Protein Structure", " Quaternary", "Algorithms", "Protein Binding"]}, "links": [{"href": "http://academic.oup.com/nar/article-pdf/47/W1/W414/28880050/gkz378.pdf"}, {"href": "https://doi.org/10.1093/nar/gkz378"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Nucleic%20Acids%20Research", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1093/nar/gkz378", "name": "item", "description": "10.1093/nar/gkz378", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1093/nar/gkz378"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-05-22T00:00:00Z"}}, {"id": "10.1016/j.geoderma.2021.115656", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:15:43Z", "type": "Journal Article", "created": "2021-12-15", "title": "A framework for determining the total salt content of soil profiles using time-series Sentinel-2 images and a random forest-temporal convolution network", "description": "Soil salinization causes a deterioration in soil health and threatens crop growth. Rapid identification of salinization in farmlands is of great significance to improve soil functions and to maintain sustainable land management. As salt moves in soil profiles during plowing and irrigation, the commonly used protocol for measuring and monitoring salt content in topsoil does not provide a thorough assessment. In order to quantify and comprehensively evaluate the salt content in deep soil, this study developed a novel framework for monitoring total salt content in the soil profile to a depth of 1 m by combining information from time-series satellite images and machine learning. The field experiments were conducted in Alar, Southern Xinjiang, with a total of 120 soil samples and 582 measurements of EM38-MK2 apparent electrical conductivity in 2019 and 2020 to quantify the vertical variation in the salt content. A total of 42 covariates derived from time-series Sentinel-2 images, including 20 salinity indices, 10 soil indices, and 12 vegetation indices were used for modeling salinity in the soil profile. From the total covariates, 22 were selected using the Random Forest. Soil salinity which was modeled using a Temporal Convolution Network in 2019 and 2020 and forecast for 2021. The model effectively revealed the spatial and temporal variability of the salt content in the soil profile with R2 of 0.71 and 0.65 for 2019 and 2020, respectively. The proposed new framework provides an effective method to estimate the salt content in the soil profile for precision agriculture in arid and semi-arid regions.", "keywords": ["2. Zero hunger", "Soil salinity", "Random Forest", "13. Climate action", "Time-series images", "Soil profile", "0401 agriculture", " forestry", " and fisheries", "04 agricultural and veterinary sciences", "15. Life on land", "6. Clean water", "Temporal Convolution Network"]}, "links": [{"href": "https://doi.org/10.1016/j.geoderma.2021.115656"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Geoderma", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.geoderma.2021.115656", "name": "item", "description": "10.1016/j.geoderma.2021.115656", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.geoderma.2021.115656"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-03-01T00:00:00Z"}}, {"id": "10.1016/j.geodrs.2024.e00792", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:15:44Z", "type": "Journal Article", "created": "2023-12-15", "title": "Grass Cover and Shallow Tillage Inter-Row Soil Cultivation Affecting Co2 and N2o Emissions in a Sloping Vineyard in Upland Balaton, Hungary", "description": "Greenhouse gas (GHG) emissions can accelerate the current climate change trend, resulting in higher soil temperatures and changes in soil water contents. The aim of the study was to investigate to what extent different cultivation methods and sampling positions on the slope (location along the slope) are affecting soil GHG emissions in vineyards. In the study, different inter-row soil cultivation methods were investigated including shallow soil tillage (ST) and grass cover (GC) inter-rows. Intact soil columns were collected and different soil water contents were applied under a laboratory environment to simulate different precipitation conditions. Our findings showed significant differences in the emitted CO2 and N2O between the cultivation methods, where the GC soil had 2.9 times higher average CO2 and 6.1 times higher N2O emissions compared to the bare, ST soil. The amount of initial and longer term soil water content significantly influenced soil-derived GHG emissions, with the highest averaged values observed for the continuously high water content soil samples (0.377 mgCO2 m\u22122 s\u22121 and 0.076 \u03bcgN2O m\u22122 s\u22121). For the GC inter-rows, we also observed significant differences in the GHG emissions among the different sampling positions of the investigated slopes. We found that besides the different soil water contents, the main causes for these differences could be the variances in the soil physical and chemical properties. The findings of this study can be used to better estimate soil GHG emissions at various water contents, for different inter-row soil management cultivation methods, and potentially mitigate some adverse effects of global warming by reducing the amount of GHG released into the atmosphere.", "keywords": ["Q1 Science (General) / term\u00e9szettudom\u00e1ny \u00e1ltal\u00e1ban", "550", "630"]}, "links": [{"href": "https://doi.org/10.1016/j.geodrs.2024.e00792"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Geoderma%20Regional", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.geodrs.2024.e00792", "name": "item", "description": "10.1016/j.geodrs.2024.e00792", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.geodrs.2024.e00792"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-01-01T00:00:00Z"}}, {"id": "10.1016/j.geodrs.2024.e00801", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:15:44Z", "type": "Journal Article", "created": "2024-04-20", "title": "National-scale digital soil mapping performances are related to covariates and sampling density: Lessons from France", "description": "Accurate soil property and class predictions through spatial modelling necessitate a thoughtful selection of explanatory variables and sample size, as their choice greatly impacts model performance. Within the framework of Global Soil Nutrient and Nutrient Budgets maps (GSNmap), the FAO Global Soil Partnership (GSP) launched a country-driven digital soil mapping (DSM) approach. The GSP asked the countries if they could implement the DSM prediction of ten soil properties, using their national point data and a set of widely available covariates (GSP_Cov). In this study, we examined the effect of including additional national-based covariates and soil observations on the performance of the prediction models using mainland France as a pilot. The learning soil dataset was based on a systematic 16-to-16\u202fkm grid. For a subset of soil properties, we also assessed using repeated k-fold cross-validation the effect of adding to this dataset many other irregularly spread measurements. The GSP_Cov included common widely available covariates that represented information about terrain, climate, and organisms. The second set of covariates consisted of the GSP_Cov, extended to extra covariates available at a national level, such as previously existing soil maps, geological maps, remote sensing products and others. Random Forest approach in combination with the Boruta selection method was employed for mapping ten soil properties: soil organic carbon (SOC), pH (water), total nitrogen (N), available phosphorus (P), available potassium (K), cation exchange capacity (CEC), bulk density (BD), and texture (clay, silt, and sand). The results revealed noteworthy enhancements in prediction performance for more than half of the properties, although, for some of them, the improvements were negligible. The most significant improvements were obtained for pH, CEC and texture, where geological variables and a previous pH map significantly contributed to the increase in accuracy. Adding numerous points (around 25,000) to the learning dataset improved the performance of soil particle-size fractions predictions. By broadening the spectrum of covariates and better covering the feature and geographical spaces considered in soil prediction models, this research underscores the importance of implementing a more diverse range of covariates at a national scale and of densifying soil information to enlarge the feature and geographical spaces of multidimensional soil/covariates combinations. This information should be taken into account in national and continental digital soil mapping endeavours.", "keywords": ["2. Zero hunger", "Soil", "Digital soil mapping", "13. Climate action", "[SDU.STU] Sciences of the Universe [physics]/Earth Sciences", "[SDU.STU]Sciences of the Universe [physics]/Earth Sciences", "Spatial sampling", "[SDV.SA.SDS]Life Sciences [q-bio]/Agricultural sciences/Soil study", "15. Life on land", "[SDV.SA.SDS] Life Sciences [q-bio]/Agricultural sciences/Soil study", "Covariates", "Modelling", "Random forest"], "contacts": [{"organization": "Suleymanov, Azamat, Richer-De-Forges, Anne C, Saby, Nicolas P. A., Arrouays, Dominique, Martin, Manuel P, Bispo, Antonio,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1016/j.geodrs.2024.e00801"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Geoderma%20Regional", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.geodrs.2024.e00801", "name": "item", "description": "10.1016/j.geodrs.2024.e00801", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.geodrs.2024.e00801"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-06-01T00:00:00Z"}}, {"id": "10.1016/j.jenvman.2014.05.032", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:15:49Z", "type": "Journal Article", "created": "2014-06-18", "title": "Five Crop Seasons' Records Of Greenhouse Gas Fluxes From Upland Fields With Repetitive Applications Of Biochar And Cattle Manure", "description": "The application of char to agricultural land is recognized as a potential way to sequester atmospheric carbon (C) assimilated by plants in soil, thus decelerating global warming. Such a process would also be expected to improve plant growth and the physical and chemical properties of soil. However, field investigations of the effects of continuous char application have not been reported. In the present study, the effects of repetitive bamboo char application on CO2, CH4, and N2O flux from soil, soil C content, and crop yield were investigated at two upland fields over five crop seasons. Three treatments: chemical fertilizer (CF) applied plots (Control plot); cattle manure (CM) (10\u00a0t\u00a0ha(-1)) and CF applied plot (CM plot); and bamboo char (20\u00a0t\u00a0ha(-1)), cattle manure (10\u00a0t\u00a0ha(-1)), and CF applied plot (Char/CM plot), were arranged in each field. After three crop seasons, the fourth treatment with char was applied without CF (Char plot) was given to one of the fields. CM and/or char were applied every crop season. Gas fluxes were measured using the static chamber method. Seasonal variations in CO2 flux and total CO2 emissions were consistently similar between the CM and Char/CM plots and between the Char and Control plots. As such, the decomposition rate of bamboo char was quite small, and the positive or negative effect of char on CM decomposition was not significant in the fields. Soil C analysis provided confirmation of this. CM application enhanced N2O emission mainly in the summer crop season. The differences in total N2O emission between the Char/CM and CM plots as well as between the Char and Control plots were insignificant in most cases. Total CH4 flux was negligibly small in all cases. Although the yield of winter crop (broccoli) in the Char/CM plots was twice observed to be higher than that in the Control and CM plots at one of the fields, in general, the char application had no effect on overall crop yield. Thus, the repeated application of bamboo char had no significant influence on greenhouse gas emissions and crop yields, but a high C accumulating function was found.", "keywords": ["Crops", " Agricultural", "Greenhouse Effect", "2. Zero hunger", "Air Pollutants", "Nitrous Oxide", "Agriculture", "04 agricultural and veterinary sciences", "Carbon Dioxide", "15. Life on land", "01 natural sciences", "12. Responsible consumption", "Manure", "Random Allocation", "Soil", "Japan", "13. Climate action", "Charcoal", "Animals", "0401 agriculture", " forestry", " and fisheries", "Cattle", "Gases", "Seasons", "Fertilizers", "Methane", "0105 earth and related environmental sciences"], "contacts": [{"organization": "Naoya Kanazaki, Akira Watanabe, Akira Shibata, Shuhei Makabe, Kosuke Ikeya, Yuki Sugiura,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1016/j.jenvman.2014.05.032"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20Environmental%20Management", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.jenvman.2014.05.032", "name": "item", "description": "10.1016/j.jenvman.2014.05.032", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.jenvman.2014.05.032"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2014-11-01T00:00:00Z"}}, {"id": "10.1016/j.mec.2020.e00126", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:15:53Z", "type": "Journal Article", "created": "2020-03-19", "title": "Synthetic control of plasmid replication enables target- and self-curing of vectors and expedites genome engineering of Pseudomonas putida", "description": "Genome engineering of non-conventional microorganisms calls for the development of dedicated synthetic biology tools. Pseudomonas putida is a Gram-negative, non-pathogenic soil bacterium widely used for metabolic engineering owing to its versatile metabolism and high levels of tolerance to different types of stress. Genome editing of P. putida largely relies on homologous recombination events, assisted by helper plasmid-based expression of genes encoding DNA modifying enzymes. Plasmid curing from selected isolates is the most tedious and time-consuming step of this procedure, and implementing commonly used methods to this end in P. putida (e.g. temperature-sensitive replicons) is often impractical. To tackle this issue, we have developed a toolbox for both target- and self-curing of plasmid DNA in Pseudomonas species. Our method enables plasmid-curing in a simple cultivation step by combining in vivo digestion of vectors by the I-SceI homing nuclease with synthetic control of plasmid replication, triggered by the addition of a cheap chemical inducer (3-methylbenzoate) to the medium. The system displays an efficiency of vector curing >90% and the screening of plasmid-free clones is greatly facilitated by the use of fluorescent markers that can be selected according to the application intended. Furthermore, quick genome engineering of P. putida using self-curing plasmids is demonstrated through genome reduction of the platform strain EM42 by eliminating all genes encoding \u03b2-lactamases, the catabolic ben gene cluster, and the pyoverdine synthesis machinery. Physiological characterization of the resulting streamlined strain, P. putida SEM10, revealed advantageous features that could be exploited for metabolic engineering.", "keywords": ["Genome engineering", "0301 basic medicine", "0303 health sciences", "Pseudomonas putida", "QH301-705.5", "Plasmid curing", "3. Good health", "03 medical and health sciences", "Special issue on Non-conventional microbes edited by Ian Wheeldon and Aindrila Mukhopadhyay", "Biology (General)", "Metabolic engineering", "Synthetic biology", "TP248.13-248.65", "Biotechnology"]}, "links": [{"href": "https://doi.org/10.1016/j.mec.2020.e00126"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Metabolic%20Engineering%20Communications", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.mec.2020.e00126", "name": "item", "description": "10.1016/j.mec.2020.e00126", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.mec.2020.e00126"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-06-01T00:00:00Z"}}, {"id": "10.1016/j.nexus.2021.100017", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:15:54Z", "type": "Journal Article", "created": "2021-11-08", "title": "Economic contributions and synergies of biogas with the SDGs in Ethiopia", "description": "Domestic biogas technology helps to foster sustainable development in different ways. It is particularly important in countries like Ethiopia where about 80% of the population lives in rural areas, and more than 90% of the households use solid biomass for cooking. In light of this, the Government of Ethiopia has launched a National Biogas Programme in 2008. The Programme, now in its third phase, has successfully installed tens of thousands of biogas digesters. This paper aims to give a macroeconomic insight on the role of the biogas sector in Ethiopia. The annual gross value of biogas outputs reached USD 7.7 million in 2015/16. Installing biogas digesters contributes USD 1.4 million each year to the construction industry. Results of the study indicate that the micro and macroeconomic contributions of biogas sector partly rely on the effective utilization of its co-product (i.e., the slurry) as fertilizer. Agricultural policies of the country should therefore highlight and link domestic biogas production with the extension services.", "keywords": ["Domestic biogas", "2. Zero hunger", "Domestic biogas", " Rural energy", " Energy transition", " SDGs", " Ethiopia", "Agriculture (General)", "1. No poverty", "Rural energy", "TJ807-830", "02 engineering and technology", "01 natural sciences", "7. Clean energy", "Renewable energy sources", "S1-972", "12. Responsible consumption", "13. Climate action", "11. Sustainability", "0202 electrical engineering", " electronic engineering", " information engineering", "Ethiopia", "Energy transition", "SDGs", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://iris.unive.it/bitstream/10278/5009820/2/Yalew_2021_Economic%20contributions%20and%20synergies%20of%20biogas%20with%20the%20SDGs%20in%20Ethiopia.pdf"}, {"href": "https://doi.org/10.1016/j.nexus.2021.100017"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Energy%20Nexus", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.nexus.2021.100017", "name": "item", "description": "10.1016/j.nexus.2021.100017", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.nexus.2021.100017"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-12-01T00:00:00Z"}}, {"id": "10.1016/j.scitotenv.2010.09.029", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:15:58Z", "type": "Journal Article", "created": "2010-10-19", "title": "The Effects Of Phytophagous Insects On Water And Soil Nutrient Concentrations And Fluxes Through Forest Stands Of The Level Ii Monitoring Network In The Uk", "description": "The effects of insect defoliators on throughfall and soil nutrient fluxes were studied in coniferous and deciduous stands at five UK intensive monitoring plots (1998 to 2008). Links were found between the dissolved organic carbon (DOC), nitrogen (N) and potassium (K) fluxes through the forest system to biological activity within the canopy. Underlying soil type determined the leaching or accumulation of these elements. Under oak, monitored at two sites, frass from caterpillars of Tortrix viridana and Operophtera brumata added direct deposition of ~16kgha(-1)extra N during defoliation. Peaks of nitrate (NO(3)-N) flux between 5 and 9kgha(-1) (\u00d75 usual winter values) were recorded in consecutive years in shallow soil waters. Synchronous rises in deep soil NO(3)-N fluxes at the Grizedale sandy site indicate downward flushing, not seen at the clay site. Under three Sitka spruce stands, generation of honeydew (DOC) was attributed to two aphid species (Elatobium abietinum and Cinara pilicornis) with distinctive feeding strategies. Throughfall DOC showed mean annual fluxes (6 seasons) ~45-60kgha(-1) compared with rainfall values of 14-22kgha(-1). Increases of total N in throughfall and NO(3)-N fluxes in shallow soil solution were detected - soil water fluxes reached 8kgha(-1) in Llyn Brianne, ~25kgha(-1) in Tummel, and ~40kg NO(3)-Nha(-1) in Coalburn. At Tummel, on sandy soil, NO(3)-N leaching showed increased concentration at depth, attributed to microbiological activity within the soil. By contrast, at Coalburn and Llyn Brianne, sites on peaty gleys, soil water NO(3)-N was retained mostly within the humus layer. Soil type is thus key to predicting N movement and retention patterns. These long term analyses show important direct and indirect effects of phytophagous insects in forest ecosystems, on above and below ground processes affecting tree growth, soil condition, vegetation and water quality.", "keywords": ["0106 biological sciences", "Insecta", "Nitrogen", "Fresh Water", "Nitrogen Cycle", "15. Life on land", "01 natural sciences", "United Kingdom", "Trees", "Soil", "13. Climate action", "Animals", "Soil Pollutants", "Environmental Monitoring"]}, "links": [{"href": "https://doi.org/10.1016/j.scitotenv.2010.09.029"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Science%20of%20The%20Total%20Environment", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.scitotenv.2010.09.029", "name": "item", "description": "10.1016/j.scitotenv.2010.09.029", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.scitotenv.2010.09.029"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2010-12-01T00:00:00Z"}}, {"id": "10.1016/j.scitotenv.2023.167674", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:16:02Z", "type": "Journal Article", "created": "2023-10-07", "title": "Outdoor climate drives diversity patterns of dominant microbial taxa in caves worldwide", "description": "The cave microbiota is assumed to be shaped by indoor microclimate, biotic and abiotic factors, which are largely dependent from outside environmental conditions; however, this knowledge is available at local or regional scales only. To address this knowledge gap, we reanalyzed over 1050 bacterial and fungal communities of caves worldwide, and found that outdoor temperature and rainfall play a critical role in explaining differences in microbial diversity patterns of global caves, selecting specific dominant taxa across gradients of growing aridity conditions with arid climate leading to a reduction in total cave microbial diversity. Moreover, we found that fungal (from 186 to 1908 taxa) and bacterial (from 467 to 1619 taxa) diversity increased under temperate-tropical and temperate-continental climatic regions, respectively, highlighting an opposite preference for the two microbial compartments. We hypothesized that outdoor geographical, climatic variables and lithology are critical epistatic drivers in assembling microbial communities and their dominant taxa, whose ecological responses could be useful to predict the fate of these subterranean environments in the context of climate change. Our work elucidates the intimate connection between caves microbiota and surface ecosystems highlighting the sensitivity of cave microbial communities to climatic changes and environmental degradation. This work also provides a natural benchmark for the biogeographic information for caves globally and for protection strategies aiming at conservation of underground environments.", "keywords": ["Cave ecosystems", "Bacteria", "Geography", "Microbiota", "Microbiomes", "15. Life on land", "Microbial ecology", "Caves", "13. Climate action", "XXXXXX - Unknown", "Climate change", "Environmental drivers", "Top dominant species", "Mycobiome"]}, "links": [{"href": "https://doi.org/10.1016/j.scitotenv.2023.167674"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Science%20of%20The%20Total%20Environment", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.scitotenv.2023.167674", "name": "item", "description": "10.1016/j.scitotenv.2023.167674", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.scitotenv.2023.167674"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-01-01T00:00:00Z"}}, {"id": "10.1016/j.scitotenv.2023.168249", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:16:02Z", "type": "Journal Article", "created": "2023-10-31", "title": "An advanced global soil erodibility (K) assessment including the effects of saturated hydraulic conductivity", "description": "USLE-type models are widely used to estimate average annual soil loss at large scales, with the erodibility factor (K) being the sole component that accounts for soil's susceptibility to erosion. The factor includes the information on permeability in the equation, however, most definitions of the K factor consider the soil hydrological influence only very crudely and indirectly. Thus, the direct impact of surface runoff infiltration and drainage on soil erosion is largely neglected. The objective of this study is to incorporate soil hydraulic properties in the K factor map by merging available global-scale measured saturated hydraulic conductivity (Ksat) data with soil texture and organic carbon information into a modified K factor. To achieve this, the Wischmeier and Smith (1978) soil texture- and permeability-based equation (KWischmeier factor) was modified to include Ksat, called Kksat factor. Using the Random Forest machine learning algorithm, the KWischmeier factor and the Kksat factor were each correlated with soil and remote sensing covariates for spatial extrapolation of two independent K factor maps at 1\u00a0km spatial resolution. We noted a clear decrease in the mean value of the Kksat factor (0.023\u00a0t\u00a0ha\u00a0h\u00a0ha-1\u00a0MJ-1\u00a0mm-1) compared to the mean value of the KWischmeier factor (0.027\u00a0t\u00a0ha\u00a0h\u00a0ha-1\u00a0MJ-1\u00a0mm-1). The reduction in Kksat factor values was most pronounced in tropical regions reflecting the difference in soil properties (e.g., clay and iron), whereas other climate regions showed relatively minor changes in comparison to the KWischmeier factor as well as to the recent global modeling of Borrelli et al. (2017) (KGloSEM factor maps). As many studies discussed an overall overestimation of (R)USLE based erosion rates compared to measurements, this reduction in the K factor might improve modeled erosion rates in the right direction. The Kksat marks an important initial step in integrating hydraulic properties into the K factor of USLE-type models and can prove their significance in future studies.", "keywords": ["K factor; Random Forest; Soil hydraulic properties; Soil texture; Tropical regions; USLE", "15. Life on land", "6. Clean water"]}, "links": [{"href": "https://doi.org/10.1016/j.scitotenv.2023.168249"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Science%20of%20The%20Total%20Environment", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.scitotenv.2023.168249", "name": "item", "description": "10.1016/j.scitotenv.2023.168249", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.scitotenv.2023.168249"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-01-01T00:00:00Z"}}, {"id": "10.1016/j.soildyn.2022.107366", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:16:14Z", "type": "Journal Article", "created": "2022-08-09", "title": "Seismic resonant metamaterials for the protection of an elastic-plastic SDOF system against vertically propagating seismic shear waves (SH) in nonlinear soil", "description": "Open AccessISSN:1879-341X", "keywords": ["Seismic risk mitigation method", "Seismic metamaterials", "0211 other engineering and technologies", "02 engineering and technology", "Seismic risk mitigation method; Seismic metamaterials; Metabarrier; Multi-mass resonators; meta-SSI; Domain reduction method (DRM); Nonlinear soil; Nonlinear structure; Energy-based approach (APEDR); Real-ESSI Simulator", "meta-SSI", "0201 civil engineering", "Domain reduction method (DRM)", "Nonlinear soil", "Energy-based approach (APEDR)", "Metabarrier", "Multi-mass resonators", "Nonlinear structure", "Real-ESSI Simulator"]}, "links": [{"href": "https://doi.org/10.1016/j.soildyn.2022.107366"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Soil%20Dynamics%20and%20Earthquake%20Engineering", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.soildyn.2022.107366", "name": "item", "description": "10.1016/j.soildyn.2022.107366", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.soildyn.2022.107366"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-03-01T00:00:00Z"}}, {"id": "10.1016/j.soildyn.2019.105873", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:16:14Z", "type": "Journal Article", "created": "2019-09-30", "title": "Dynamic response of buried pipelines in randomly structured soil", "description": "Abstract Buried pipelines in soil undergoing ground vibrations respond by simple kinematic interaction and essentially follow the motion of the surrounding ground. More specifically, the strains that develop in the soil are imparted to the outer surface of the pipeline, which is the celebrated Newmark assumption dating from the 1960's that appears in design codes for pipelines. Of course, this assumption is invalid if the pipeline has bends and other geometric discontinuities. Furthermore, there remains the basic question of modeling the surrounding soil, which is a complex, two-phase medium with an inhomogeneous and anisotropic composition. In this work, we examine the dynamic response of a continuous pipeline by employing the waveguide model from classical elastodynamics. This implies that the pipeline is a continuously supported, beam-type structural element with distributed mass undergoing both axial and flexural vibrations. In here, we retain the influence of the axial vibrations on the flexural vibrations and work with a coupled system of two partial differential equations. The end boundaries of the pipeline are assumed to be fixed at a large distance from its center. We first examine the eigenvalue problem and then focus on the transient vibrations of the pipeline to support motion. In order to account for the complex composition of the ground, the soil impedance is converted into a random variable. Assuming uniform, Gaussian and log-normal distributions, we use Monte Carlo simulations to generate sample values for the soil impedance and compute the statistics (mean, variance and skewness) for the eigenvalue problem. Once the statistics of the eigenproperties of the buried pipeline example are recovered, the validity of the assumption that the soil is a deterministic medium is discussed.", "keywords": ["ta212", "Buried pipelines", "Random soil", "Dynamic loads", "0211 other engineering and technologies", "02 engineering and technology", "Elastic waveguides", "Soil impedances", "0201 civil engineering"]}, "links": [{"href": "https://doi.org/10.1016/j.soildyn.2019.105873"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Soil%20Dynamics%20and%20Earthquake%20Engineering", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.soildyn.2019.105873", "name": "item", "description": "10.1016/j.soildyn.2019.105873", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.soildyn.2019.105873"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-01-01T00:00:00Z"}}, {"id": "10.1016/j.soildyn.2024.108631", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:16:14Z", "type": "Journal Article", "created": "2024-04-24", "title": "Dynamic structure-soil-structure interaction for nuclear power plants", "description": "Open AccessThe paper explores the linear and nonlinear dynamic interaction between the reactor and the auxiliary buildings of a Nuclear Power Plant on a realistic layered soil profile, aiming to evaluate the effect of the auxiliary building on the seismic response of crucial components inside the reactor building. Based on realistic geometrical assumptions, highfidelity 3D finite element (FE) models of increasing sophistication are created in the Real-ESSI Simulator. Starting with elastic soil conditions and assuming tied soil\u2500foundation interfaces, it is shown that the rocking vibration mode of the soil\u2500reactor building system is amplified by the presence of the auxiliary building through a detrimental out-of-phase rotational interaction mechanism. Adding nonlinear interfaces, which allow for soil\u2500foundation detachment during seismic shaking, introduces higher excitation frequencies (above 10 Hz) in the foundation of the reactor building, leading to amplification effects in the resonant vibration response of the biological shield wall (incl. reactor vessel) inside the reactor building. A small amount of sliding at the soil\u2500foundation interface of the auxiliary building slightly decreases its response, thus reducing its aforementioned negative effects on the reactor building. When soil nonlinearity is accounted for, the rocking vibration mode of the soil\u2500reactor building system almost vanishes, thanks to the strongly nonlinear response of the underlying soil. This leads to a beneficial out-of-phase horizontal interaction mechanism between the two buildings, reducing the spectral accelerations at critical points inside the reactor building by up to 55% for frequencies close to the resonant vibration frequency of the auxiliary building. This implies that the neighboring buildings could offer mutual seismic protection to each other, in a similar way to the recently emerged seismic resonant metamaterials, provided that they are properly tuned during the design phase, accounting for soil and soil-foundation interface nonlinearities.", "keywords": ["Structure-Soil-Structure interaction (SSSI)", "Structure-Soil-Structure interaction (SSSI); Nuclear Power Plants (NPPs); Domain reduction method (DRM); Nonlinear interface; Nonlinear soil; Seismic resonant metamaterials; Meta-SSI", "FOS: Physical sciences", "Structure-soil-structure interaction (SSSI); Nuclear power plants (NPPs); Domain reduction method (DRM); Nonlinear interface; Nonlinear soil; Seismic resonant metamaterials; Meta-SSI", "Physics - Applied Physics", "Applied Physics (physics.app-ph)", "7. Clean energy", "Domain reduction method (DRM)", "Meta-SSI", "Nuclear Power Plants (NPPs)", "Nonlinear soil", "Structure-soil-structure interaction (SSSI)", "Nuclear power plants (NPPs)", "Nonlinear interface", "Seismic resonant metamaterials"]}, "links": [{"href": "https://doi.org/10.1016/j.soildyn.2024.108631"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Soil%20Dynamics%20and%20Earthquake%20Engineering", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.soildyn.2024.108631", "name": "item", "description": "10.1016/j.soildyn.2024.108631", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.soildyn.2024.108631"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-06-01T00:00:00Z"}}, {"id": "10.1017/s0007114508981435", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:16:28Z", "type": "Journal Article", "created": "2008-05-15", "title": "Effects Of The Absence Of Protozoa From Birth Or From Weaning On The Growth And Methane Production Of Lambs", "description": "Merino ewes (n108) joined to a single sire were allocated into three flocks, with ewes in one flock being chemically defaunated in the second month of gestation. Single lambs born to defaunated ewes (BF lambs) were heavier at birth and at weaning than lambs born to faunated ewes (F lambs). After weaning, all BF and F lambs were individually housed then half of the F lambs were chemically defaunated (DF lambs). In trial 1, BF, DF and F lambs were offered a concentrate-based diet containing either 14 or 19\uffc2\uffa0% protein for a 10-week period. Wool growth rate of BF lambs was 10\uffc2\uffa0% higher than that of DF or F lambs and was increased 9\uffc2\uffa0% by the high-protein diet. While there was no main effect of protozoa treatment on enteric methane production, there was an interaction between protozoa treatment and diet for methane production. BF and DF lambs produced more methane than F lambs when fed the low-protein diet but when fed the high-protein diet, emissions were less than (BF lambs) or not different from (DF lambs) emissions from F lambs. In trial 2, lambs were offered 800\uffc2\uffa0g roughage per d and, again, methane production was not affected by the presence of protozoa in the rumen. The data indicate that while lambs without rumen protozoa have greater protein availability than do faunated ruminants, there is no main effect of rumen protozoa on enteric methane production by lambs fed either a concentrate or roughage diet.
", "keywords": ["2. Zero hunger", "Rumen", "Wool", "0402 animal and dairy science", "Eukaryota", "Growth", "Weaning", "04 agricultural and veterinary sciences", "Specific Pathogen-Free Organisms", "Animals", " Newborn", "Fermentation", "Animals", "Birth Weight", "Female", "Methane", "Sheep", " Domestic"], "contacts": [{"organization": "B. A. Vanselow, Roger Hegarty, S. H. Bird, R. Woodgate,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1017/s0007114508981435"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/British%20Journal%20of%20Nutrition", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1017/s0007114508981435", "name": "item", "description": "10.1017/s0007114508981435", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1017/s0007114508981435"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2008-12-01T00:00:00Z"}}, {"id": "10.1073/pnas.1913688117", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:17:03Z", "type": "Journal Article", "created": "2020-03-17", "title": "ENO regulates tomato fruit size through the floral meristem development network", "description": "A dramatic evolution of fruit size has accompanied the domestication and improvement of fruit-bearing crop species. In tomato (Solanum lycopersicum), naturally occurring cis-regulatory mutations in the genes of the CLAVATA-WUSCHEL signaling pathway have led to a significant increase in fruit size generating enlarged meristems that lead to flowers with extra organs and bigger fruits. In this work, by combining mapping-by-sequencing and CRISPR/Cas9 genome editing methods, we isolatedEXCESSIVE NUMBER OF FLORAL ORGANS(ENO), an AP2/ERF transcription factor which regulates floral meristem activity. Thus, theENOgene mutation gives rise to plants that yield larger multilocular fruits due to an increased size of the floral meristem. Genetic analyses indicate thatenoexhibits synergistic effects with mutations at theLOCULE NUMBER(encodingSlWUS) andFASCIATED(encodingSlCLV3) loci, two central players in the evolution of fruit size in the domestication of cultivated tomatoes. Our findings reveal that anenomutation causes a substantial expansion ofSlWUSexpression domains in a flower-specific manner. In vitro binding results show that ENO is able to interact with the GGC-box cis-regulatory element within theSlWUSpromoter region, suggesting that ENO directly regulatesSlWUSexpression domains to maintain floral stem-cell homeostasis. Furthermore, the study of natural allelic variation of theENOlocus proved that a cis-regulatory mutation in the promoter ofENOhad been targeted by positive selection during the domestication process, setting up the background for significant increases in fruit locule number and fruit size in modern tomatoes.
", "keywords": ["0301 basic medicine", "570", "Floral meristem", "[SPI] Engineering Sciences [physics]", "[SDV]Life Sciences [q-bio]", "Meristem", "Quantitative Trait Loci", "Genes", " Plant", "CLAVATA/WUSCHEL regulatory network", "Domestication", "[SPI]Engineering Sciences [physics]", "03 medical and health sciences", "Solanum lycopersicum", "Gene Expression Regulation", " Plant", "AP2/ERF transcription factor", "Promoter Regions", " Genetic", "Cell Proliferation", "Plant Proteins", "580", "Homeodomain Proteins", "2. Zero hunger", "Tomato (Solanum lycopersicum)", "0303 health sciences", "Stem Cells", "Biological Sciences", "15. Life on land", "fruit size", "Crop Production", "[SDV] Life Sciences [q-bio]", "CLAVATA-WUSCHEL regulatory network", "GENETICA", "Fruit", "Mutation", "Fruit size", "floral meristem", "Transcription Factors"]}, "links": [{"href": "https://pnas.org/doi/pdf/10.1073/pnas.1913688117"}, {"href": "https://doi.org/10.1073/pnas.1913688117"}, {"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.1913688117", "name": "item", "description": "10.1073/pnas.1913688117", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1073/pnas.1913688117"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-03-16T00:00:00Z"}}, {"id": "10.1016/j.still.2020.104672", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:16:24Z", "type": "Journal Article", "created": "2020-05-15", "title": "Can pedotransfer functions based on environmental variables improve soil total nutrient mapping at a regional scale?", "description": "Abstract Numerous pedotransfer functions (PTFs) have been developed to predict the soil properties of interest from other soil properties and, less commonly, from environmental variables. However, only a few PTFs have been developed to predict soil nutrients using environmental variables and to extrapolate them to characterize spatial soil variations at a regional scale. In this study, we attempted to develop PTFs for the total nitrogen (TN), total phosphorus (TP) and total potassium (TK) concentrations in three typical pedo-climatic areas of China (Fujian Province, Jiangsu Province and Qilian Mountains) with diverse climate, terrain and soil types. A series of linear PTFs were developed to quantify the effect of terrain and climate on the predictive relations between the soil nutrients and other measured soil properties and environmental variables. In addition, digital soil mapping (DSM) based on the random forest (RF) technique was performed to test the hypothesis that the best-fit PTFs could be extrapolated, based on soil maps and environmental variables, to describe regional soil variations in the soil nutrients. The root mean square errors (RMSEs) of the best-fit PTFs for TN, TP and TK ranged from 0.21 to 0.79 g kg\u22121, 0.20 to 0.58 g kg\u22121, and 3.68 to 5.00 g kg\u22121, respectively. Different RMSEs were produced by DSM, namely 0.37-1.89 g kg\u22121, 0.19\u22120.56 g kg\u22121 and 3.79-4.83 g kg\u22121 for TN, TP and TK, respectively. PTFs provided a sound basis for database compilation if the soil properties were highly correlated. However, the extrapolation of best-fit PTFs to regional scales yielded greater errors than those produced by DSM. The comparison results reveal the limitations of PTFs and suggest that their performance could be improved by using environmental covariates or by fitting data in areas with relatively homogeneous soil landscapes. The DSM techniques may provide satisfactory alternatives to predict soil data at both regional and plot scales.", "keywords": ["Digital soil mapping", "Total phosphorus", "Total potassium", "0401 agriculture", " forestry", " and fisheries", "04 agricultural and veterinary sciences", "Total nitrogen", "15. Life on land", "Regression analysis", "01 natural sciences", "Random forest", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1016/j.still.2020.104672"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Soil%20and%20Tillage%20Research", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.still.2020.104672", "name": "item", "description": "10.1016/j.still.2020.104672", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.still.2020.104672"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-08-01T00:00:00Z"}}, {"id": "10.1016/j.tim.2020.02.015", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:16:25Z", "type": "Journal Article", "created": "2020-03-31", "title": "Pseudomonas putida", "description": "Pseudomonas putida is a ubiquitous rhizosphere saprophytic bacterium and soil colonizer that belongs to the wide group of fluorescent Pseudomonas species. P. putida strain KT2440, the best-characterized member of the group, became a model laboratory species that attracted considerable attention as a cell host for synthetic biology and metabolic engineering due to its remarkable and versatile metabolism, which has evolved to withstand harsh environmental conditions and physicochemical stress. This species has also retained the ability to survive and thrive in natural soil environments. P. putida mt-2 and other isolates have been recognized and used as agents for bioremediation due to their ability to grow on complex substrates, including aromatic compounds (e.g., toluene and xylenes). The absence of pathogenic determinants is another key feature of strain KT2440 that facilitated its adoption for both fundamental and applied research in microbiology.", "keywords": ["0301 basic medicine", "0303 health sciences", "03 medical and health sciences", "Metabolic Engineering", "Pseudomonas putida", "Synthetic Biology"]}, "links": [{"href": "https://doi.org/10.1016/j.tim.2020.02.015"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Trends%20in%20Microbiology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.tim.2020.02.015", "name": "item", "description": "10.1016/j.tim.2020.02.015", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.tim.2020.02.015"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-06-01T00:00:00Z"}}, {"id": "10.1029/2021ms002812", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:16:42Z", "type": "Journal Article", "created": "2022-07-06", "title": "Unsaturated Transport Modeling: Random\u2010Walk Particle\u2010Tracking as a Numerical\u2010Dispersion Free and Efficient Alternative to Eulerian Methods", "description": "AbstractLagrangian methods, such as the random\uffe2\uff80\uff90walk particle\uffe2\uff80\uff90tracking (RWPT), are often qualified as a potentially valuable alternative to error\uffe2\uff80\uff90prone Eulerian methods for simulating solute transport in unsaturated porous media. Yet, the RWPT method has not yet been validated against \uffe2\uff80\uff90 and compared to \uffe2\uff80\uff90 currently used Eulerian solutions for simulating solute transport under a range of typical unsaturated conditions. This paper presents a new implementation of the RWPT approach for advective \uffe2\uff80\uff90 dispersive transport problems under variably saturated conditions. We first show that, as previously demonstrated for a heterogeneous dispersion tensor, using an interpolation scheme in the RWPT algorithm performs well for problems with abrupt changes in the water content. The new model is then compared against a simple 1D uniform transport problem, for which an analytical solution exist, and against a variety of 1D and 3D numerical solutions using the different Eulerian schemes implemented in Hydrus software suite. Results show that, while the Eulerian solutions significantly suffer from numerical dispersion in case of a coarse spatial discretization of the simulation domain, the new Lagrangian model provides accurate solutions for all problems. Furthermore, RWPT reproduces accurately solute transport for typical unsaturated flow conditions (infiltration, evaporation). Moreover, the Lagrangian model appears to be orders of magnitude faster than its Eulerian alternative to solve a 3D heterogeneous problem. Thus, RWPT should be seen as an attractive, stable and efficient alternative for simulating solute transport in the vadose zone, especially in case of complex and large problems.This article describes a comprehensive framework for soil organic carbon density (SOCD, kg/m3) modeling and mapping, based on spatiotemporal random forest (RF) and quantile regression forests (QRF). A total of 45,616 SOCD observations and various Earth observation (EO) feature layers were used to produce 30 m SOCD maps for the EU at four-year intervals (2000\uffe2\uff80\uff932022) and four soil depth intervals (0\uffe2\uff80\uff9320 cm, 20\uffe2\uff80\uff9350 cm, 50\uffe2\uff80\uff93100 cm, and 100\uffe2\uff80\uff93200 cm). Per-pixel 95% probability prediction intervals (PIs) and extrapolation risk probabilities are also provided. Model evaluation indicates good overall accuracy (R2 = 0.63 and CCC = 0.76 for hold-out independent tests). Prediction accuracy varies by land cover, depth interval and year of prediction with the worst accuracy for shrubland and deeper soils 100\uffe2\uff80\uff93200 cm. The PI validation confirmed effective uncertainty estimation, though with reduced accuracy for higher SOCD values. Shapley analysis identified soil depth as the most influential feature, followed by vegetation, long-term bioclimate, and topographic features. While pixel-level uncertainty is substantial, spatial aggregation reduces uncertainty by approximately 66%. Detecting SOCD changes remains challenging but offers a baseline for future improvements. Maps, based primarily on topsoil data from cropland, grassland, and woodland, are best suited for applications related to these land covers and depths. We recommend that users interpret the maps in conjunction with local knowledge and consider the accompanying uncertainty and extrapolation risk layers. All data and code are available under an open license at https://doi.org/10.5281/zenodo.13754343 and https://github.com/AI4SoilHealth/SoilHealthDataCube/.Lagrangian methods, such as the random\uffe2\uff80\uff90walk particle\uffe2\uff80\uff90tracking (RWPT), are often qualified as a potentially valuable alternative to error\uffe2\uff80\uff90prone Eulerian methods for simulating solute transport in unsaturated porous media. Yet, the RWPT method has not yet been validated against \uffe2\uff80\uff90 and compared to \uffe2\uff80\uff90 currently used Eulerian solutions for simulating solute transport under a range of typical unsaturated conditions. This paper presents a new implementation of the RWPT approach for advective \uffe2\uff80\uff90 dispersive transport problems under variably saturated conditions. We first show that, as previously demonstrated for a heterogeneous dispersion tensor, using an interpolation scheme in the RWPT algorithm performs well for problems with abrupt changes in the water content. The new model is then compared against a simple 1D uniform transport problem, for which an analytical solution exist, and against a variety of 1D and 3D numerical solutions using the different Eulerian schemes implemented in Hydrus software suite. Results show that, while the Eulerian solutions significantly suffer from numerical dispersion in case of a coarse spatial discretization of the simulation domain, the new Lagrangian model provides accurate solutions for all problems. Furthermore, RWPT reproduces accurately solute transport for typical unsaturated flow conditions (infiltration, evaporation). Moreover, the Lagrangian model appears to be orders of magnitude faster than its Eulerian alternative to solve a 3D heterogeneous problem. Thus, RWPT should be seen as an attractive, stable and efficient alternative for simulating solute transport in the vadose zone, especially in case of complex and large problems.