{"type": "FeatureCollection", "features": [{"id": "10.1111/1462-2920.13842", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:18:26Z", "type": "Journal Article", "created": "2017-06-27", "title": "Identification and characterisation of isoprene-degrading bacteria in an estuarine environment", "description": "Summary

Approximately one\uffe2\uff80\uff90third of volatile organic compounds (VOCs) emitted to the atmosphere consists of isoprene, originating from the terrestrial and marine biosphere, with a profound effect on atmospheric chemistry. However, isoprene provides an abundant and largely unexplored source of carbon and energy for microbes. The potential for isoprene degradation in marine and estuarine samples from the Colne Estuary, UK, was investigated using DNA\uffe2\uff80\uff90Stable Isotope Probing (DNA\uffe2\uff80\uff90SIP). Analysis at two timepoints showed the development of communities dominated by Actinobacteria including members of the genera Mycobacterium, Rhodococcus, Microbacterium and Gordonia. Representative isolates, capable of growth on isoprene as sole carbon and energy source, were obtained from marine and estuarine locations, and isoprene\uffe2\uff80\uff90degrading strains of Gordonia and Mycobacterium were characterised physiologically and their genomes were sequenced. Genes predicted to be required for isoprene metabolism, including four\uffe2\uff80\uff90component isoprene monooxygenases (IsoMO), were identified and compared with previously characterised examples. Transcriptional and activity assays of strains growing on isoprene or alternative carbon sources showed that growth on isoprene is an inducible trait requiring a specific IsoMO. This study is the first to identify active isoprene degraders in estuarine and marine environments using DNA\uffe2\uff80\uff90SIP and to characterise marine isoprene\uffe2\uff80\uff90degrading bacteria at the physiological and molecular level.

", "keywords": ["0301 basic medicine", "570", "Volatile Organic Compounds", "0303 health sciences", "550", "Base Sequence", "610", "QR Microbiology", "Sequence Analysis", " DNA", "Environment", "6. Clean water", "Mixed Function Oxygenases", "Mycobacterium", "03 medical and health sciences", "Hemiterpenes", "13. Climate action", "Pentanes", "Butadienes", "Rhodococcus", "14. Life underwater", "Gordonia Bacterium", "Research Articles", "Genome", " Bacterial", "GE Environmental Sciences"]}, "links": [{"href": "https://ueaeprints.uea.ac.uk/id/eprint/63998/4/Published_manuscript.pdf"}, {"href": "http://onlinelibrary.wiley.com/wol1/doi/10.1111/1462-2920.13842/fullpdf"}, {"href": "https://doi.org/10.1111/1462-2920.13842"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Microbiology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/1462-2920.13842", "name": "item", "description": "10.1111/1462-2920.13842", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/1462-2920.13842"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-07-21T00:00:00Z"}}, {"id": "10.1016/j.agsy.2005.09.010", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:15:19Z", "type": "Journal Article", "created": "2006-09-28", "title": "A Simulation-Based Analysis Of Productivity And Soil Carbon In Response To Time-Controlled Rotational Grazing In The West African Sahel Region", "description": "In the Sahel region of West Africa, the traditional organization of the population and the grazing land avoided overexploitation of pastures. Since independence in the 1960s, grazing lands have been opened to all without specific guidance, and the vulnerability of the pastures to degradation has increased. Rotational grazing is postulated as a possible solution to provide higher pasture productivity, higher animal loads per unit land, and perhaps improved soil carbon storage. The objective of this study was to conduct a simulation-based assessment of the impact of rotational grazing management on pasture biomass production, grazing efficiency, animal grazing requirement satisfaction, and soil carbon storage in the Madiama Commune, Mali. The results showed that grazing intensity is the primary factor influencing the productivity of annual pastures and their capacity to provide for animal grazing requirements. Rotating the animals in paddocks is a positive practice for pasture protection that showed advantage as the grazing pressure increased. Increasing the size of the reserve biomass not available for grazing, which triggers the decision of taking the animals off the field, provided better pasture protection but reduced animal grazing requirements satisfaction. In terms of soil carbon storage, all management scenarios led to reduction of soil carbon at the end of the 50-year simulation periods, ranging between 4% and 5% of the initial storage. The differences in reduction as a function of grazing intensity were of no practical significance in these soils with very low organic matter content, mostly resistant to decomposition.", "keywords": ["Carbon sequestration", "Livestock management", "2. Zero hunger", "Soil organic matter", "Grazing systems", "Rotation", "Rotational grazing", "Pastures", "Soil carbon storage", "Controlled grazing", "04 agricultural and veterinary sciences", "15. Life on land", "Pasture management", "Soil carbon", "Simulation modeling", "Semiarid zones", "Paddocks", "Sahel", "Range management", "West Africa", "0401 agriculture", " forestry", " and fisheries", "Cattle", "Field Scale", "Productivity"], "contacts": [{"organization": "Washington State University Bryan Hall, P.O. Box 645121, Pullman, WA 99164-5121, USA ( host institution ), Badini, Oumarou, St\u00f6ckle, Claudio O., Jones, Jim W., Nelson, Roger, Kodio, Amadou, Keita, Moussa,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1016/j.agsy.2005.09.010"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Agricultural%20Systems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.agsy.2005.09.010", "name": "item", "description": "10.1016/j.agsy.2005.09.010", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.agsy.2005.09.010"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2007-04-01T00:00:00Z"}}, {"id": "10.1007/bf00020864", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:14:10Z", "type": "Journal Article", "created": "2004-12-09", "title": "Nitrogen Transformations In Limed And Nitrogen-Fertilized Soil In Norway Spruce Stands", "description": "Nitrogen transformations in the soil, and the resulting changes in carbon and nitrogen compounds in soil percolate water, were studied in two stands of Norway spruce (Picea abies L.). Over the last 30 years the stands were repeatedly limed (total 6000 kg ha\u22121), fertilized with nitrogen (total about 900 kg ha\u22121), or both treatments together. Both aerobic incubations of soil samples in the laboratory, and intact soil core incubations in the field showed that in control plots ammonification widely predominated over nitrification. In both experiments nitrogen addition increased the formation of mineral-N. In one experiment separate lime and nitrogen treatments increased nitrification, in the other, only lime and nitrogen addition together had this effect. In one experiment immobilization of nitrogen to soil microbial biomass was lower in soil only treated with nitrogen. Soil percolate water was collected by means of lysimeters placed under the humus layer and 10 cm below in the mineral soil. Total N, NH4-N and NO3-N were measured, and dissolved organic nitrogen was fractioned according to molecular weight. NO3-N concentrations in percolate water, collected under the humus layer, were higher in plots treated with N-fertilizer, especially when lime was also added. The treatments had no effect on the N concentrations in mineral soil. A considerable proportion of nitrogen was leached in organic form.", "keywords": ["maan suodanta", "typpi", "ammonifikaatio", "0401 agriculture", " forestry", " and fisheries", "nitrifikaatio", "mikrobibiomassa", "04 agricultural and veterinary sciences", "DOC", "15. Life on land", "01 natural sciences", "DON", "6. Clean water", "0105 earth and related environmental sciences"], "contacts": [{"organization": "Smolander, A., Kitunen, V., Priha, O., M\u00e4lk\u00f6nen, E.,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1007/bf00020864"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Plant%20and%20Soil", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/bf00020864", "name": "item", "description": "10.1007/bf00020864", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/bf00020864"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "1995-05-01T00:00:00Z"}}, {"id": "10.1007/s004420100656", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:14:26Z", "type": "Journal Article", "created": "2003-02-13", "title": "Fine-Root Biomass And Fluxes Of Soil Carbon In Young Stands Of Paper Birch And Trembling Aspen As Affected By Elevated Atmospheric Co2 And Tropospheric O3", "description": "Rising atmospheric CO2 may stimulate future forest productivity, possibly increasing carbon storage in terrestrial ecosystems, but how tropospheric ozone will modify this response is unknown. Because of the importance of fine roots to the belowground C cycle, we monitored fine-root biomass and associated C fluxes in regenerating stands of trembling aspen, and mixed stands of trembling aspen and paper birch at FACTS-II, the Aspen FACE project in Rhinelander, Wisconsin. Free-air CO2 enrichment (FACE) was used to elevate concentrations of CO2 (average enrichment concentration 535\u00a0\u00b5l l-1) and O3 (53\u00a0nl l-1) in developing forest stands in 1998 and 1999. Soil respiration, soil pCO2, and dissolved organic carbon in soil solution (DOC) were monitored biweekly. Soil respiration was measured with a portable infrared gas analyzer. Soil pCO2 and DOC samples were collected from soil gas wells and tension lysimeters, respectively, at depths of 15, 30, and 125\u00a0cm. Fine-root biomass averaged 263\u00a0g m-2 in control plots and increased 96% under elevated CO2. The increased root biomass was accompanied by a 39% increase in soil respiration and a 27% increase in soil pCO2. Both soil respiration and pCO2 exhibited a strong seasonal signal, which was positively correlated with soil temperature. DOC concentrations in soil solution averaged ~12\u00a0mg l-1 in surface horizons, declined with depth, and were little affected by the treatments. A simplified belowground C budget for the site indicated that native soil organic matter still dominated the system, and that soil respiration was by far the largest flux. Ozone decreased the above responses to elevated CO2, but effects were rarely statistically significant. We conclude that regenerating stands of northern hardwoods have the potential for substantially greater C input to soil due to greater fine-root production under elevated CO2. Greater fine-root biomass will be accompanied by greater soil C efflux as soil respiration, but leaching losses of C will probably be unaffected.", "keywords": ["0106 biological sciences", "Ecology and Evolutionary Biology", "Aspen-FACE-project", "root-", "USA-", "pollutants-", "Environmental-Sciences)", "tropospheric-ozone", "forest-productivity", "01 natural sciences", "biomass-", "northern-forests", "124-38-9: CARBON DIOXIDE", "soil-carbon-flux", "terrestrial-ecosystems", "populus-tremuloides", "Cellular and Developmental Biology", "soil-carbon", "7440-44-0: CARBON", "carbon-", "fine-root", "Bioenergetics- (Biochemistry-and-Molecular-Biophysics)", "Natural Resources and Environment", "04 agricultural and veterinary sciences", "GLOBAL-ECOLOGY", "North-America", "Nearctic-region)", "Rhinelander- (Wisconsin-", "carbon-sequestration", "atmosphere-", "biomass-production", "dissolved-organic-carbon [DOC-]", "Science", "respiration-", "carbon-dioxide-enrichment", "forest-plantations", "carbon-dioxide", "carbon-storage", "fine-root-biomass", "belowground-biomass", "United-States-Wisconsin-Rhinelander", "carbon-cycle", "Health Sciences", "ozone-", "soil-respiration", "air-pollution", "global-change", "atmospheric-carbon-dioxide", "biomass", "Molecular", "15. Life on land", "ozone", "13. Climate action", "roots-", "Legacy", "Terrestrial-Ecology (Ecology-", "free-air-carbon-dioxide-enrichment [FREE-]: experimental-method", "0401 agriculture", " forestry", " and fisheries", "Northern Forests Global Change Carbon Sequestration Soil Respiration Dissolved Organic Carbon Soil PCO2"]}, "links": [{"href": "https://doi.org/10.1007/s004420100656"}, {"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/s004420100656", "name": "item", "description": "10.1007/s004420100656", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s004420100656"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2001-07-01T00:00:00Z"}}, {"id": "10.1016/j.envint.2019.05.061", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:15:49Z", "type": "Journal Article", "created": "2019-06-14", "title": "Monitoring the impact of desert dust outbreaks for air quality for health studies", "description": "We review the major features of desert dust outbreaks that are relevant to the assessment of dust impacts upon human health. Our ultimate goal is to provide scientific guidance for the acquisition of relevant population exposure information for epidemiological studies tackling the short and long term health effects of desert dust. We first describe the source regions and the typical levels of dust particles in regions close and far away from the source areas, along with their size, composition, and bio-aerosol load. We then describe the processes by which dust may become mixed with anthropogenic particulate matter (PM) and/or alter its load in receptor areas. Short term health effects are found during desert dust episodes in different regions of the world, but in a number of cases the results differ when it comes to associate the effects to the bulk PM, the desert dust-PM, or non-desert dust-PM. These differences are likely due to the different monitoring strategies applied in the epidemiological studies, and to the differences on atmospheric and emission (natural and anthropogenic) patterns of desert dust around the world. We finally propose methods to allow the discrimination of health effects by PM fraction during dust outbreaks, and a strategy to implement desert dust alert and monitoring systems for health studies and air quality management.", "keywords": ["Aerosols", "Air Movements", "Epidemiological studies", "Air Pollutants", "Pols mineral -- Tesis doctorals", "Epidemiology", ":Energies [\u00c0rees tem\u00e0tiques de la UPC]", "Atmospheric particulate matter", "Dust", "15. Life on land", "Mineral dust", "01 natural sciences", "Article", "3. Good health", "Environmental sciences", "13. Climate action", "\u00c0rees tem\u00e0tiques de la UPC::Energies", "Air Pollution", "11. Sustainability", "GE1-350", "Desert dust", "Dust control", "Environmental Monitoring", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1016/j.envint.2019.05.061"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environment%20International", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.envint.2019.05.061", "name": "item", "description": "10.1016/j.envint.2019.05.061", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.envint.2019.05.061"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-09-01T00:00:00Z"}}, {"id": "10.1016/j.chemosphere.2017.07.064", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:15:37Z", "type": "Journal Article", "created": "2017-07-18", "title": "Response of soil dissolved organic matter to microplastic addition in Chinese loess soil", "description": "Plastic debris is accumulating in agricultural land due to the increased use of plastic mulches, which is causing serious environmental problems, especially for biochemical and physical properties of the soil. Dissolved organic matter (DOM) plays a central role in driving soil biogeochemistry, but little information is available on the effects of plastic residues, especially microplastic, on soil DOM. We conducted a soil-incubation experiment in a climate-controlled chamber with three levels of microplastic added to loess soil collected from the Loess Plateau in China: 0% (control, CK), 7% (M1) and 28% (M2) (w/w). We analysed the soil contents of dissolved organic carbon (DOC), dissolved organic nitrogen (DON), NH4+, NO3-, dissolved organic phosphorus (DOP), and PO43- and the activities of fluorescein diacetate hydrolase (FDAse) and phenol oxidase. The higher level of microplastic addition significantly increased the nutrient contents of the DOM solution. The lower level of addition had no significant effect on the DOM solution during the first seven days, but the rate of DOM decomposition decreased in M1 between days 7 and 30, which increased the nutrient contents. The microplastic facilitated the accumulation of high-molecular-weight humic-like material between days 7 and 30. The DOM solutions were mainly comprised of high-molecular-weight humic-like material in CK and M1 and of high-molecular-weight humic-like material and tyrosine-like material in M2. The Microplastic stimulated the activities of both enzymes. Microplastic addition thus stimulated enzymatic activity, activated pools of organic C, N, and P, and was beneficial for the accumulation of dissolved organic C, N and P.", "keywords": ["2. Zero hunger", "China", "Nitrogen", "Microplastic", "0211 other engineering and technologies", "Excitation-emission matrix (EEM)", "Agriculture", "Phosphorus", "02 engineering and technology", "15. Life on land", "01 natural sciences", "Carbon", "6. Clean water", "Soil", "Dissolved organic carbon (DOC)", "Dissolved organic phosphorus (DOP)", "Models", " Chemical", "13. Climate action", "Dissolved organic nitrogen (DON)", "Organic Chemicals", "Plastics", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1016/j.chemosphere.2017.07.064"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Chemosphere", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.chemosphere.2017.07.064", "name": "item", "description": "10.1016/j.chemosphere.2017.07.064", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.chemosphere.2017.07.064"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-10-01T00:00:00Z"}}, {"id": "10.1016/j.ecolind.2018.12.008", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:15:42Z", "type": "Journal Article", "created": "2018-12-12", "title": "Sensitivity of labile carbon fractions to tillage and organic matter management and their potential as comprehensive soil quality indicators across pedoclimatic conditions in Europe", "description": "Abstract Soil quality is defined as the capacity of the soil to perform multiple functions, and can be assessed by measuring soil chemical, physical and biological parameters. Among soil parameters, labile organic carbon is considered to have a primary role in many soil functions related to productivity and environmental resilience. Our study aimed at assessing the suitability of different labile carbon fractions, namely dissolved organic carbon (DOC), hydrophilic DOC (Hy-DOC), permanganate oxidizable carbon (POXC, also referred to as Active Carbon), hot water extractable carbon (HWEC) and particulate organic matter carbon (POMC) as soil quality indicators in agricultural systems. To do so, we tested their sensitivity to two agricultural management factors (tillage and organic matter input) in 10 European long-term field experiments (LTEs), and we assessed the correlation of the different labile carbon fractions with physical, chemical and biological soil quality indicators linked to soil functions. We found that reduced tillage and high organic matter input increase concentrations of labile carbon fractions in soil compared to conventional tillage and low organic matter addition, respectively. POXC and POMC were the most sensitive fractions to both tillage and fertilization across the 10 European LTEs. In addition, POXC was the labile carbon fraction most positively correlated with soil chemical (total organic carbon, total nitrogen, and cation exchange capacity), physical (water stable aggregates, water holding capacity, bulk density) and biological soil quality indicators (microbial biomass carbon and nitrogen, and soil respiration). We conclude that POXC represents a labile carbon fraction sensitive to soil management and that is the most informative about total soil organic matter, nutrients, soil structure, and microbial pools and activity, parameters commonly used as indicators of various soil functions, such as C sequestration, nutrient cycling, soil structure formation and soil as a habitat for biodiversity. Moreover, POXC measurement is relatively cheap, fast and easy. Therefore, we suggest measuring POXC as the labile carbon fraction in soil quality assessment schemes in addition to other valuable soil quality indicators.", "keywords": ["2. Zero hunger", "Hydrophilic dissolved organic carbon (Hy-DOC)", "Permanganate oxidizable carbon (POXC)", "04 agricultural and veterinary sciences", "15. Life on land", "Air and water emissions", "Particulate organic matter carbon (POMC)", "Soil quality", "Soil tillage", "Dissolved organic carbon (DOC)", "13. Climate action", "Biodiversity and ecosystem services", "Long-term experimental field (LTEs)", "Hot water extractable carbon (HWEC)", "0401 agriculture", " forestry", " and fisheries"]}, "links": [{"href": "https://doi.org/10.1016/j.ecolind.2018.12.008"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecological%20Indicators", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.ecolind.2018.12.008", "name": "item", "description": "10.1016/j.ecolind.2018.12.008", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.ecolind.2018.12.008"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-04-01T00:00:00Z"}}, {"id": "10.1016/j.ijbiomac.2025.141425", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-07-26T16:16:15Z", "type": "Journal Article", "created": "2025-02-24", "title": "Perfluoroalkyl acids interact with major human blood protein fibrinogen: Experimental and computation study", "description": "PFAS (per- and polyfluorinated alkyl substances) are synthetic compounds prized for their stability across various industries, but they pose an increasing threat to the environment and human health. Following the regulation of long-chain PFAS, short-chain and ultra-short-chain molecules have been introduced as substitutes, yet their bioaccumulation potential remains poorly understood. In this study, we combined experimental (intrinsic fluorescence, microscale thermophoresis, clotting assays) and computational approaches to investigate how trifluoroacetic acid, perfluorobutanoic acid, and perfluorooctanoic acid bind to fibrinogen, a key human blood protein. All tested perfluoroalkyl acids (PFAAs) exhibited moderate binding affinity (Kd in the 10-4-10-5\u202fM range), yet circular dichroism and fibrin clot formation assays revealed no functional impairment of fibrinogen. Molecular docking indicated distinct, chain-length-specific binding sites, suggesting multiple routes for PFAAs to interact with fibrinogen without disrupting its primary biological role. These findings challenge the assumption that short-chain PFAS are less bioaccumulative and underscore the need for further research into their long-term health impacts, particularly given their widespread presence in the environment and potential accumulation in human blood.", "keywords": ["Human fibrinogen", "PFAS", "Molecular docking"]}, "links": [{"href": "https://doi.org/10.1016/j.ijbiomac.2025.141425"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/International%20Journal%20of%20Biological%20Macromolecules", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.ijbiomac.2025.141425", "name": "item", "description": "10.1016/j.ijbiomac.2025.141425", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.ijbiomac.2025.141425"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2025-05-01T00:00:00Z"}}, {"id": "10.1016/j.jenvman.2024.123141", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:16:21Z", "type": "Journal Article", "created": "2024-11-07", "title": "Four approaches to setting soil health targets and thresholds in agricultural soils", "description": "Soil health is a key concept in worldwide efforts to reverse soil degradation, but to be used as a tool to improve soils, it must be definable at a policy level and quantifiable in some way. Soil indicators can be used to define soil health and quantify the degree to which soils fulfil expected functions. Indicators are assessed using target and/or threshold values, which define achievable levels of the indicators or functions. However, defining robust targets and thresholds is not a trivial task, as they should account for soil, climate, land-use, management, and history, among others. This paper introduces and discusses (through theory and stakeholder feedback) four approaches to setting targets and thresholds: fixed, reference, distribution and relative change. Three approaches (not including relative change) are then illustrated using a case study, located in Denmark, Italy, and France, which highlights key strengths and weaknesses of each approach. Finally, a framework is presented that facilitates both choosing the most appropriate target/threshold method for a given context, and using targets/thresholds to trigger follow-up actions to promote soil health.", "keywords": ["Conservation of Natural Resources", "Monitoring", "Supplementary Data", "QH301 Biology", "Denmark", "Framework", "610", "https://ars.els-cdn.com/content/image/1-s2.0-S030147972403127X-mmc1.docx", "[SDV.SA.SDS]Life Sciences [q-bio]/Agricultural sciences/Soil study", "01 natural sciences", "QH301", "Soil", "framework", "Soil health", "SDG 13 - Climate Action", "threshold", "Indicators", "[SDV.SA.SDS] Life Sciences [q-bio]/Agricultural sciences/Soil study", "SDG 15 - Life on Land", "0105 earth and related environmental sciences", "GE", "Targets", "soil health", "thresholds", "Agriculture", "04 agricultural and veterinary sciences", "indicators", "monitoring", "Italy", "targets", "0401 agriculture", " forestry", " and fisheries", "Thresholds", "France", "GE Environmental Sciences"], "contacts": [{"organization": "Matson, Amanda, Fantappi\u00e8, Maria, Campbell, Grant A., Miranda-V\u00e9lez, Jorge, Faber, Jack, Gomes, Lucas Carvalho, Hessel, Rudi, Lana, Marcos, Mocali, Stefano, Smith, Pete, Robinson, David, Bispo, Antonio, van Egmond, Fenny, Keesstra, Saskia, Saby, Nicolas P. A., Smreczak, Bozena, Froger, Claire, Suleymanov, Azamat, Chenu, Claire,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1016/j.jenvman.2024.123141"}, {"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.2024.123141", "name": "item", "description": "10.1016/j.jenvman.2024.123141", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.jenvman.2024.123141"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-12-01T00:00:00Z"}}, {"id": "10.1016/j.jfoodeng.2020.109973", "type": "Feature", "geometry": null, "properties": {"license": "Closed Access", "updated": "2026-07-26T16:16:21Z", "type": "Journal Article", "created": "2020-02-13", "title": "Physical and flow properties of pseudocereal-based protein-rich ingredient powders", "description": "Abstract Knowledge of bulk handling properties of food powders is essential in the design of industrial equipment and selection of appropriate powder handling operations. The objectives of this study were to determine the physical and flow properties of plant-based regular and protein-rich flours to establish relationships between powder physical and bulk handling properties as influenced by protein enrichment. A number of physical properties (bulk density, flowability, wall friction and compressibility) were assessed for 11 regular- and protein-rich flours from pseudocereals (amaranth, buckwheat, quinoa) and cereals (rice and maize). Relevant physicochemical properties such as particle size distribution, microstructure and water sorption behaviour were also studied. The protein-rich pseudocereal flours had irregular-shaped, rough surfaces with mean particle diameters ranging from 96.5 to 215\u00a0\u03bcm. The compressibility indices (42.6\u201351.4%) were higher for the former compared to the regular protein content powders and they displayed lesser tendency to uptake water with increasing relative humidity. Analysis of the flow behaviour showed the protein-rich flours to be more cohesive with higher wall friction angle values than the regular protein content powders. The new information obtained in this study is critical in optimising the processing, stability and applications of these value-added high-protein pseudocereal ingredient powders.", "keywords": ["2. Zero hunger", "0404 agricultural biotechnology", "Protein", "Water sorption", "Flowability", "Pseudocereal", "04 agricultural and veterinary sciences", "Powder", "0405 other agricultural sciences", "Microstructure"]}, "links": [{"href": "https://doi.org/10.1016/j.jfoodeng.2020.109973"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20Food%20Engineering", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.jfoodeng.2020.109973", "name": "item", "description": "10.1016/j.jfoodeng.2020.109973", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.jfoodeng.2020.109973"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-09-01T00:00:00Z"}}, {"id": "10.1016/j.jhazmat.2020.122438", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:16:22Z", "type": "Journal Article", "created": "2020-03-02", "title": "Degradation and transformation on nitrated nonylphenol isomers in activated sludge under nitrifying and heterotrophic conditions", "description": "Nitrated nonylphenols (2-nitro-nonylphenols, NNPs) are metabolites of the endocrine-disrupter nonylphenols (NPs). While they have been detected in the environment, their fate in activated sludge has yet to be determined. In this study, we used synthesized NNP isomers and a 14C-tracer technique to study the degradation and transformation of four NNP isomers (NNP111, NNP112, NNP38, and NNP65) in nitrifying activated sludge (NAS) and heterotrophic bacteria-enhanced activated sludge (HAS). Our results showed that the degradation of NNPs in both NAS and HAS was isomer-specific. The half-lives of the NNPs decreased in the order: NNP111 > NNP112 > NNP38 > NNP65. After 36 days of incubation, 9.48 % and 4.01 % of the 14C-NNP111 was mineralized in NAS and HAS, respectively. In addition to mineralization, five metabolites of NNPs containing hydroxyl, carbonyl, and carboxyl substituents on the alkyl chains were formed in NAS but not in HAS. The transformation of NNPs differed in NAS and HAS, mainly due to the differences in their microbial communities and the activities thereof in NAS and HAS. This is the first study of the isomer-specific fate of NNP isomers in activated sludge. Future studies should assess the toxicity, stability and potential risks of NNP metabolites in the environment.", "keywords": ["Biodegradation", " Environmental", "Isomerism", "Phenols", "Sewage", "11. Sustainability", "0211 other engineering and technologies", "02 engineering and technology", "Endocrine Disruptors", "Nitrification", "01 natural sciences", "Water Pollutants", " Chemical", "6. Clean water", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1016/j.jhazmat.2020.122438"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20Hazardous%20Materials", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.jhazmat.2020.122438", "name": "item", "description": "10.1016/j.jhazmat.2020.122438", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.jhazmat.2020.122438"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-07-01T00:00:00Z"}}, {"id": "10.1016/j.jhazmat.2025.137949", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:16:23Z", "type": "Journal Article", "created": "2025-03-17", "title": "Identification of new PFAS for severe interference with thyroid hormone transport: A combined in vitro/silico approach", "description": "A tiered in vitro/in silico approach was developed to screen 12,654 per- and polyfluoroalkyl substances (PFAS) for their potential to disrupt the thyroid hormone transport. Initially, a set of 45 PFAS was tested using TTR-TR\u03b2-CALUX bioassay, which was subsequently employed to develop a classification model, distinguishing active and inactive PFAS. The model fulfills all good practices for QSAR model validation and can predict whether a given PFAS can disrupt plasma transport of the thyroid hormone (T4). Subsequently, active compounds were used to develop two regression approaches: (i) multiple linear regression MLR, and (ii) second approach aimed at identifying multiple valid QSAR models based on different data-splitting strategies. Finally, a comprehensive virtual screening of a large PFAS dataset was conducted to assess their potency in disrupting thyroid hormone transport. The predictions indicated that more than 7500 compounds were active with over 100 PFAS potentially causing even greater adverse effects than PFOA. These findings highlight the critical role of integrating New Approach Methodologies (NAM)-based in vitro toxicity testing with multifaceted molecular modeling in assessing the risks associated with PFAS contamination in environmental matrices.", "keywords": ["Fluorocarbons", "Thyroid Hormones", "PFAS CALUX", "PFAS", "H2020", "Quantitative Structure-Activity Relationship", "Humans", "Computer Simulation", "Biological Transport", "Environmental Pollutants", "Endocrine Disruptors", "PROMISCES"]}, "links": [{"href": "https://doi.org/10.1016/j.jhazmat.2025.137949"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20Hazardous%20Materials", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.jhazmat.2025.137949", "name": "item", "description": "10.1016/j.jhazmat.2025.137949", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.jhazmat.2025.137949"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2025-07-01T00:00:00Z"}}, {"id": "10.1016/j.scitotenv.2006.08.032", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:16:31Z", "type": "Journal Article", "created": "2006-09-27", "title": "Seasonal Variations In Decomposition Processes In A Valley-Bottom Riparian Peatland", "description": "A year-long field survey was carried out at a valley-bottom riparian peatland site in North Wales, UK from January 2002 to December 2002 to examine the seasonal variation of decomposition processes and dissolved organic carbon (DOC) concentrations. Peat temperature, physicochemistry, organic carbon pools, basal CO(2) respiration and extracellular enzyme activities (beta-glucosidase, phosphatase, sulphatase and phenol oxidase) were monitored monthly. The results of a principle component eigenanalysis of field data show that concentrations of basal CO(2) respiration, soil solution DOC and phenolics were positively correlated to soil temperature (P<0.01, F=12.25; P<0.001, F=59.8; P<0.001, F=141.27) with Q(10) responses of 2.29, 6.42 and 14.42, respectively. Extracellular enzyme activities, however, were more strongly associated with seasonal changes in ion concentrations and did not correspond significantly to temperature alone suggesting limitations attributable to a combination of continuous anaerobiosis and/or the suppressive compounds. Restraints on soil enzyme activities may limit the loss of CO(2) from the microbial community that is dependent on soil enzyme activities for nutrient availability. The seasonal effect of temperature on DOC may be explained by increased plant rhizodeposition and microbial activity. These results do not imply that the long-term increasing trend in DOC export is explainable by temperature increase but suggest that temperature may be a key factor regulating the seasonal variation in DOC concentrations. Thus, seasonal temperature effects on DOC may represent an important component of long-term models of DOC export.", "keywords": ["Wales", "phenolics", "Climate", "beta-Glucosidase", "Temperature", "04 agricultural and veterinary sciences", "DOC", "Carbon Dioxide", "Hydrogen-Ion Concentration", "15. Life on land", "01 natural sciences", "Carbon", "Phosphoric Monoester Hydrolases", "Soil", "Phenols", "13. Climate action", "basal respiration", "0401 agriculture", " forestry", " and fisheries", "peatland", "Seasons", "Sulfatases", "soil enzymes", "Soil Microbiology", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1016/j.scitotenv.2006.08.032"}, {"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.2006.08.032", "name": "item", "description": "10.1016/j.scitotenv.2006.08.032", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.scitotenv.2006.08.032"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2006-11-01T00:00:00Z"}}, {"id": "10.1016/j.scitotenv.2024.176196", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:16:37Z", "type": "Journal Article", "created": "2024-09-13", "title": "Modeling bacterial transport and fate: Insight into the cascading consequences of soil water repellency and contrasting hydraulic conditions", "description": "The mechanisms governing bacteria transport and fate rely on their hydrophobicity and the wettability of porous media across a wide range of soil moisture conditions, extending from extreme dryness to highly saturated states. However, it largely remains unknown how transport, retention, and release mechanisms change in natural soil systems in such conditions. We thus optimized our previously published unique transport data for hydrophilic Escherichia coli (E. coli) and hydrophobic Rhodococcus erythropolis (R. erythropolis) bacteria, and bromide (Br-) in two distinct wettable and water-repellent soils at column scale. The soils were initially dry, followed by injecting influents in two pulses followed by a flushing step under saturated flow conditions for six pore volumes. We conducted simulations for each pulse separately and simultaneously for soils. There were differences in hydraulic properties of the soils due to their contrasting wetting characteristic in separate and simultaneously modeling of each pulse affecting Br- and bacteria transport fate. Bacteria attachment was the dominant retention mechanism in both soils in these conditions. Notably, the 82.4\u00a0min-1 attachment rate in wettable soil was almost 10\u00d7 greater than in the water-repellent soil and it governed optimization of bacteria die-off. Physicochemical detachment and physical release unraveled the effect of bacteria size and hydrophobicity interacting with soil wettability. The smaller and hydrophobic R. erythropolis detached more easily while hydrophilic E. coli released; the rates were enhanced by soil water repellency. Further research is needed to reveal the effects of surface wettability properties on bacteria survival especially at the nanoscale.", "keywords": ["690", "Bromides", "Bacteria", "QH301 Biology", "Transport processes", "610", "Attachment", "Water", "QH301", "Water repellency", "Soil", "Straining", "Escherichia coli", "Wettability", "Rhodococcus", "Hydrophobic and Hydrophilic Interactions", "Soil Microbiology"]}, "links": [{"href": "https://doi.org/10.1016/j.scitotenv.2024.176196"}, {"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.2024.176196", "name": "item", "description": "10.1016/j.scitotenv.2024.176196", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.scitotenv.2024.176196"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-12-01T00:00:00Z"}}, {"id": "10.1021/acs.est.4c01519", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-07-26T16:17:12Z", "type": "Journal Article", "created": "2024-06-04", "title": "Iron Oxyhydroxide Transformation in a Flooded Rice Paddy Field and the Effect of Adsorbed Phosphate", "description": "Open AccessISSN:0013-936X", "keywords": ["2. Zero hunger", "Minerals", "Iron", "iron reduction", "Oryza", "15. Life on land", "Ferric Compounds", "ferrihydrite", "6. Clean water", "Phosphates", "Mossbauer", "Soil", "Spectroscopy", " Mossbauer", "Fe(II)-catalyzed", "lepidocrocite", "13. Climate action", "microsite", "Adsorption", "isotope", "Oxidation-Reduction"]}, "links": [{"href": "https://pubs.acs.org/doi/pdf/10.1021/acs.est.4c01519"}, {"href": "https://doi.org/10.1021/acs.est.4c01519"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Science%20%26amp%3B%20Technology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1021/acs.est.4c01519", "name": "item", "description": "10.1021/acs.est.4c01519", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1021/acs.est.4c01519"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-06-04T00:00:00Z"}}, {"id": "10.1029/2002gb001925", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:17:22Z", "type": "Journal Article", "created": "2003-05-23", "title": "Effects Of Co2and Nutrient Availability On Mineral Weathering In Controlled Tree Growth Experiments", "description": "

We sought to determine the effect of elevated atmospheric CO2 on mineral weathering reactions in midlatitude carbonate\uffe2\uff80\uff90bearing forest soils of differing nutrient availability. Increased plant growth and soil respiration under elevated atmospheric CO2 suggest increased rates of carbon cycling, which may affect mineral weathering. A randomized complete block experiment was conducted, where aspen and maple saplings were grown in open top chambers under two levels of atmospheric CO2 and soil N. Soil solution chemistry and soil gas PCO2 profiles beneath aspen were collected from planting (1997) to harvest (1999). Carbonate mineral weathering products (Ca2+, Mg2+, HCO3\uffe2\uff88\uff92) dominated solutions, which were saturated with respect to calcite. Soil PCO2 values at 25 cm depth were 41% higher in high N soils, but CO2 treatment was not significant. An ANOVA model tested treatment effects on spring 1998 solution chemistry. CO2 treatment had a significant effect on DIC, which was 12% higher in elevated than ambient CO2 chambers. Little effect of CO2 treatment was observed in low N soils. In high N soils, solutions had higher concentrations of carbonate weathering products (DIC, 15%; HCO3\uffe2\uff88\uff92, 27%; Ca2+, 3%, not significant; Mg2+, 5%, not significant). Soil N availability had a significant, positive, effect on mean concentrations of Ca2+, Mg2+, K+, Na+, NO3\uffe2\uff88\uff92, SO42\uffe2\uff88\uff92, and DOC. The soil N treatment difference in solutes may result from differences in PCO2 and, additionally, NO3\uffe2\uff88\uff92 from organic matter decomposition. Our results suggest that increased carbonate weathering may occur under increased atmospheric CO2 and in fertile soils.

", "keywords": ["DIC", "Mineral Weathering", "Geological Sciences", "Science", "Carbonates", "Elevated Carbon Dioxide", "DOC", "15. Life on land", "01 natural sciences", "6. Clean water", "Soil Solution", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1029/2002gb001925"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Global%20Biogeochemical%20Cycles", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1029/2002gb001925", "name": "item", "description": "10.1029/2002gb001925", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1029/2002gb001925"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2003-05-02T00:00:00Z"}}, {"id": "10.1038/s41396-018-0072-6", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-07-26T16:17:30Z", "type": "Journal Article", "created": "2018-02-14", "title": "Microbial cycling of isoprene, the most abundantly produced biological volatile organic compound on Earth", "description": "Abstract

Isoprene (2-methyl-1,3-butadiene), the most abundantly produced biogenic volatile organic compound (BVOC) on Earth, is highly reactive and can have diverse and often detrimental atmospheric effects, which impact on climate and health. Most isoprene is produced by terrestrial plants, but (micro)algal production is important in aquatic environments, and the relative bacterial contribution remains unknown. Soils are a sink for isoprene, and bacteria that can use isoprene as a carbon and energy source have been cultivated and also identified using cultivation-independent methods from soils, leaves and coastal/marine environments. Bacteria belonging to the Actinobacteria are most frequently isolated and identified, and Proteobacteria have also been shown to degrade isoprene. In the freshwater-sediment isolate, Rhodococcus strain AD45, initial oxidation of isoprene to 1,2-epoxy-isoprene is catalyzed by a multicomponent isoprene monooxygenase encoded by the genes isoABCDEF. The resultant epoxide is converted to a glutathione conjugate by a glutathione S-transferase encoded by isoI, and further degraded by enzymes encoded by isoGHJ. Genome sequence analysis of actinobacterial isolates belonging to the genera Rhodococcus, Mycobacterium and Gordonia has revealed that isoABCDEF and isoGHIJ are linked in an operon, either on a plasmid or the chromosome. In Rhodococcus strain AD45 both isoprene and epoxy-isoprene induce a high level of transcription of 22 contiguous genes, including isoABCDEF and isoGHIJ. Sequence analysis of the isoA gene, encoding the large subunit of the oxygenase component of isoprene monooxygenase, from isolates has facilitated the development of PCR primers that are proving valuable in investigating the ecology of uncultivated isoprene-degrading bacteria.

", "keywords": ["2. Zero hunger", "0301 basic medicine", "570", "0303 health sciences", "550", "QH301 Biology", "Review Article", "Plants", "15. Life on land", "6. Clean water", "Mixed Function Oxygenases", "Actinobacteria", "Soil", "03 medical and health sciences", "Hemiterpenes", "13. Climate action", "Pentanes", "11. Sustainability", "Butadienes", "Microalgae", "Rhodococcus"]}, "links": [{"href": "https://ueaeprints.uea.ac.uk/id/eprint/66436/1/Published_manuscript.pdf"}, {"href": "http://www.nature.com/articles/s41396-018-0072-6.pdf"}, {"href": "https://repository.essex.ac.uk/21526/1/s41396-018-0072-6.pdf"}, {"href": "https://doi.org/10.1038/s41396-018-0072-6"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/The%20ISME%20Journal", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1038/s41396-018-0072-6", "name": "item", "description": "10.1038/s41396-018-0072-6", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1038/s41396-018-0072-6"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-02-20T00:00:00Z"}}, {"id": "10.1038/s41467-018-07191-0", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-07-26T16:17:31Z", "type": "Journal Article", "created": "2018-11-09", "title": "Martian magmatism from plume metasomatized mantle.", "description": "Abstract

Direct analysis of the composition of Mars is possible through delivery of meteorites to Earth. Martian meteorites include \uffe2\uff88\uffbc165 to 2400\uffe2\uff80\uff89Ma shergottites, originating from depleted to enriched mantle sources, and \uffe2\uff88\uffbc1340\uffe2\uff80\uff89Ma nakhlites and chassignites, formed by low degree partial melting of a depleted mantle source. To date, no unified model has been proposed to explain the petrogenesis of these distinct rock types, despite their importance for understanding the formation and evolution of Mars. Here we report a coherent geochemical dataset for shergottites, nakhlites and chassignites revealing fundamental differences in sources. Shergottites have lower Nb/Y at a given Zr/Y than nakhlites or chassignites, a relationship nearly identical to terrestrial Hawaiian main shield and rejuvenated volcanism. Nakhlite and chassignite compositions are consistent with melting of hydrated and metasomatized depleted mantle lithosphere, whereas shergottite melts originate from deep mantle sources. Generation of martian magmas can be explained by temporally distinct melting episodes within and below dynamically supported and variably metasomatized lithosphere, by long-lived, static mantle plumes.

", "keywords": ["0301 basic medicine", "550", "SM-ND", "Science", "Astronomical Sciences", "ISOTOPIC SYSTEMATICS", "DEPLETED MANTLE", "01 natural sciences", "Article", "DIFFERENTIATION HISTORY", "03 medical and health sciences", "MAUNA-KEA VOLCANO", "REJUVENATED VOLCANISM", "0105 earth and related environmental sciences", "RB-SR", "Q", "500", "MARS", "Geology", "Geochemistry", "Geophysics", "13. Climate action", "Physical Sciences", "Earth Sciences", "HAWAIIAN HOT-SPOT", "[SDU.STU] Sciences of the Universe [physics]/Earth Sciences", "MIDOCEAN RIDGE BASALT"]}, "links": [{"href": "https://www.nature.com/articles/s41467-018-07191-0.pdf"}, {"href": "https://escholarship.org/content/qt7g21x5tx/qt7g21x5tx.pdf"}, {"href": "https://doi.org/10.1038/s41467-018-07191-0"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Nature%20Communications", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1038/s41467-018-07191-0", "name": "item", "description": "10.1038/s41467-018-07191-0", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1038/s41467-018-07191-0"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-11-15T00:00:00Z"}}, {"id": "10.1039/c9ew00220k", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-07-26T16:17:40Z", "type": "Journal Article", "created": "2019-04-29", "title": "Long-term performance evaluation of an anoxic sulfur oxidizing moving bed biofilm reactor under nitrate limited conditions", "description": "

An anoxic sulfur-oxidizing moving bed biofilm reactor (MBBR) treating sulfur and nitrate-contaminated synthetic wastewater was monitored for 306 days under feed nitrogen-to-sulfur (N/S) molar ratios of 0.5, 0.3 and 0.1.

", "keywords": ["Aurora Universities Network", "570", "Horizon 2020", "EC", "Environmental Engineering", "218 Environmental engineering", "116 Chemical sciences", "H2020", "116", "6. Clean water", "218", "European Joint Doctorates", "11. Sustainability", "European Commission", "Knowmad Institut", "Netherlands", "Water Science and Technology"]}, "links": [{"href": "http://pubs.rsc.org/en/content/articlepdf/2019/EW/C9EW00220K"}, {"href": "https://doi.org/10.1039/c9ew00220k"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Science%3A%20Water%20Research%20%26amp%3B%20Technology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1039/c9ew00220k", "name": "item", "description": "10.1039/c9ew00220k", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1039/c9ew00220k"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-01-01T00:00:00Z"}}, {"id": "10.1099/mgen.0.000363", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:18:19Z", "type": "Journal Article", "created": "2020-04-02", "title": "Analysis of the biodegradative and adaptive potential of the novel polychlorinated biphenyl degrader Rhodococcus sp. WAY2 revealed by its complete genome sequence", "description": "

The complete genome sequence of Rhodococcus sp. WAY2 (WAY2) consists of a circular chromosome, three linear replicons and a small circular plasmid. The linear replicons contain typical actinobacterial invertron-type telomeres with the central CGTXCGC motif. Comparative phylogenetic analysis of the 16S rRNA gene along with phylogenomic analysis based on the genome-to-genome blast distance phylogeny (GBDP) algorithm and digital DNA\uffe2\uff80\uff93DNA hybridization (dDDH) with other Rhodococcus type strains resulted in a clear differentiation of WAY2, which is likely a new species. The genome of WAY2 contains five distinct clusters of bph, etb and nah genes, putatively involved in the degradation of several aromatic compounds. These clusters are distributed throughout the linear plasmids. The high sequence homology of the ring-hydroxylating subunits of these systems with other known enzymes has allowed us to model the range of aromatic substrates they could degrade. Further functional characterization revealed that WAY2 was able to grow with biphenyl, naphthalene and xylene as sole carbon and energy sources, and could oxidize multiple aromatic compounds, including ethylbenzene, phenanthrene, dibenzofuran and toluene. In addition, WAY2 was able to co-metabolize 23 polychlorinated biphenyl congeners, consistent with the five different ring-hydroxylating systems encoded by its genome. WAY2 could also use n-alkanes of various chain-lengths as a sole carbon source, probably due to the presence of alkB and ladA gene copies, which are only found in its chromosome. These results show that WAY2 has a potential to be used for the biodegradation of multiple organic compounds.

", "keywords": ["0301 basic medicine", "0303 health sciences", "PCB", "Whole Genome Sequencing", "AlkB Enzymes", "Rhodococcus; biodegradation; PAH; PCB; hydrocarbons; complete genome", "High-Throughput Nucleotide Sequencing", "PAH", "Naphthalenes", "Xylenes", "Biolog\u00eda y Biomedicina / Biolog\u00eda", "biodegradation", "Polychlorinated Biphenyls", "Hydrocarbons", "Complete genome", "03 medical and health sciences", "Biodegradation", " Environmental", "RNA", " Ribosomal", " 16S", "Biodegradation", "Cluster Analysis", "Rhodococcus", "Phylogeny", "Research Article"]}, "links": [{"href": "https://doi.org/10.1099/mgen.0.000363"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microbial%20Genomics", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1099/mgen.0.000363", "name": "item", "description": "10.1099/mgen.0.000363", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1099/mgen.0.000363"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-04-01T00:00:00Z"}}, {"id": "10.1039/d2ee00597b", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:17:40Z", "type": "Journal Article", "created": "2022-05-30", "title": "A plant-like battery: a biodegradable power source ecodesigned for precision agriculture", "description": "

A biodegradable battery inspired by the transpiration pull of liquids in plants has been ecodesigned to power wireless sensors and then be safely biodegraded or composted, resembling the way a plant comes back to nature at the end of its lifecycle.

", "keywords": ["GREAT-4PA", "Chemistry", "Evaporation Flow Redox Battery", "13. Climate action", "Biodegradable battery", "Precision Agriculture", "02 engineering and technology", "Marie Sk\u0142odowska-Curie Postodoctoral Fellowship", "0204 chemical engineering", "0210 nano-technology", "Wireless Sensor", "7. Clean energy"]}, "links": [{"href": "http://pubs.rsc.org/en/content/articlepdf/2022/EE/D2EE00597B"}, {"href": "https://doi.org/10.1039/d2ee00597b"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Energy%20%26amp%3B%20Environmental%20Science", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1039/d2ee00597b", "name": "item", "description": "10.1039/d2ee00597b", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1039/d2ee00597b"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-01-01T00:00:00Z"}}, {"id": "10.1073/pnas.1812668115", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:17:55Z", "type": "Journal Article", "created": "2018-11-30", "title": "Poplar phyllosphere harbors disparate isoprene-degrading bacteria", "description": "

The climate-active gas isoprene (2-methyl-1,3-butadiene) is released to the atmosphere in huge quantities, almost equaling that of methane, yet we know little about the biological cycling of isoprene in the environment. Although bacteria capable of growth on isoprene as the sole source of carbon and energy have previously been isolated from soils and sediments, no microbiological studies have targeted the major source of isoprene and examined the phyllosphere of isoprene-emitting trees for the presence of degraders of this abundant carbon source. Here, we identified isoprene-degrading bacteria in poplar tree-derived microcosms by DNA stable isotope probing. The genomes of isoprene-degrading taxa were reconstructed, putative isoprene metabolic genes were identified, and isoprene-related gene transcription was analyzed by shotgun metagenomics and metatranscriptomics. Gram-positive bacteria of the genus Rhodococcus proved to be the dominant isoprene degraders, as previously found in soil. However, a wider diversity of isoprene utilizers was also revealed, notably Variovorax , a genus not previously associated with this trait. This finding was confirmed by expression of the isoprene monooxygenase from Variovorax in a heterologous host. A Variovorax strain that could grow on isoprene as the sole carbon and energy source was isolated. Analysis of its genome confirmed that it contained isoprene metabolic genes with an identical layout and high similarity to those identified by DNA-stable isotope probing and metagenomics. This study provides evidence of a wide diversity of isoprene-degrading bacteria in the isoprene-emitting tree phyllosphere and greatly enhances our understanding of the biodegradation of this important metabolite and climate-active gas.

", "keywords": ["DNA", " Bacterial", "0301 basic medicine", "2. Zero hunger", "570", "0303 health sciences", "QH301 Biology", "Biological Sciences", "15. Life on land", "Mixed Function Oxygenases", "Comamonadaceae", "03 medical and health sciences", "Biodegradation", " Environmental", "Hemiterpenes", "Populus", "13. Climate action", "Butadienes", "Rhodococcus", "Metagenomics", "Genome", " Bacterial", "Phylogeny", "Soil Microbiology"]}, "links": [{"href": "https://ueaeprints.uea.ac.uk/id/eprint/69197/1/Published_manuscript.pdf"}, {"href": "https://pnas.org/doi/pdf/10.1073/pnas.1812668115"}, {"href": "https://repository.essex.ac.uk/23631/1/1812668115.full.pdf"}, {"href": "https://doi.org/10.1073/pnas.1812668115"}, {"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.1812668115", "name": "item", "description": "10.1073/pnas.1812668115", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1073/pnas.1812668115"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-11-29T00:00:00Z"}}, {"id": "10.1093/jxb/ery092", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:18:14Z", "type": "Journal Article", "created": "2018-03-06", "title": "Structure\u2013activity relationships of strigolactones via a novel, quantitative in planta bioassay", "description": "Strigolactones (SLs) are plant hormones with various functions in development, responses to stress, and interactions with (micro)organisms in the rhizosphere, including with seeds of parasitic plants. Their perception for hormonal functions requires an \u03b1,\u03b2-hydrolase belonging to the D14 clade in higher plants; perception of host-produced SLs by parasitic seeds relies on similar but phylogenetically distinct proteins (D14-like). D14 and D14-like proteins are peculiar receptors, because they cleave SLs before undergoing a conformational change that elicits downstream events. Structure-activity relationship data show that the butenolide D-ring is crucial for bioactivity. We applied a bioisosteric approach to the structure of SLs by synthetizing analogues and mimics of natural SLs in which the D-ring was changed from a butenolide to a lactam and then evaluating their bioactivity. This was done by using a novel bioassay based on Arabidopsis transgenic lines expressing AtD14 fused to firefly luciferase, in parallel with the quantification of germination-inducing activity on parasitic seeds. The results obtained showed that the in planta bioassay is robust and quantitative, and thus can be confidently added to the SL-survey toolbox. The results also showed that modification of the butenolide ring into a lactam one significantly hampers the biological activity exhibited by SLs possessing a canonical lactonic D-ring.", "keywords": ["0301 basic medicine", "Lactones", "Structure-Activity Relationship", "0303 health sciences", "03 medical and health sciences", "Plant Growth Regulators", "Orobanche", "bioisosterism", " bioassay", " chemical space", " docking", " luciferase", " perception", " plant hormones", " strigolactones", " strigolactone-D-lactams", "Biological Assay", "Research Papers"]}, "links": [{"href": "https://iris.unito.it/bitstream/2318/1661581/8/JXB2018Sanchez.pdf"}, {"href": "http://academic.oup.com/jxb/article-pdf/69/9/2333/25089692/ery092.pdf"}, {"href": "https://doi.org/10.1093/jxb/ery092"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20Experimental%20Botany", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1093/jxb/ery092", "name": "item", "description": "10.1093/jxb/ery092", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1093/jxb/ery092"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-03-15T00:00:00Z"}}, {"id": "10.1093/nar/gkz378", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-07-26T16:18:14Z", "type": "Journal Article", "created": "2019-05-06", "title": "Caver Web 1.0: identification of tunnels and channels in proteins and analysis of ligand transport", "description": "Abstract

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": "10.1186/s40168-018-0607-0", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:19:12Z", "type": "Journal Article", "created": "2018-12-07", "title": "Gene probing reveals the widespread distribution, diversity and abundance of isoprene-degrading bacteria in the environment", "description": "Approximately 500\u00a0Tg of isoprene are emitted to the atmosphere annually, an amount similar to that of methane, and despite its significant effects on the climate, very little is known about the biological degradation of isoprene in the environment. Isolation and characterisation of isoprene degraders at the molecular level has allowed the development of probes targeting isoA encoding the \u03b1-subunit of the isoprene monooxygenase. This enzyme belongs to the soluble diiron centre monooxygenase family and catalyses the first step in the isoprene degradation pathway. The use of probes targeting key metabolic genes is a successful approach in molecular ecology to study specific groups of bacteria in complex environments. Here, we developed and tested a novel isoA PCR primer set to study the distribution, abundance, and diversity of isoprene degraders in a wide range of environments.The new isoA probes specifically amplified isoA genes from taxonomically diverse isoprene-degrading bacteria including members of the genera Rhodococcus, Variovorax, and Sphingopyxis. There was no cross-reactivity with genes encoding related oxygenases from non-isoprene degraders. Sequencing of isoA amplicons from DNA extracted from environmental samples enriched with isoprene revealed that most environments tested harboured a considerable variety of isoA sequences, with poplar leaf enrichments containing more phylogenetically diverse isoA genes. Quantification by qPCR using these isoA probes revealed that isoprene degraders are widespread in the phyllosphere, terrestrial, freshwater and marine environments. Specifically, soils in the vicinity of high isoprene-emitting trees contained the highest number of isoprene-degrading bacteria.This study provides the molecular ecology tools to broaden our knowledge of the distribution, abundance and diversity of isoprene degraders in the environment, which is a fundamental step necessary to assess the impact that microbes have in mitigating the effects of this important climate-active gas.", "keywords": ["0301 basic medicine", "570", "Isoprene", "Climate", "Mixed Function Oxygenases", "Microbial ecology", "Comamonadaceae", "03 medical and health sciences", "Hemiterpenes", "Bacterial Proteins", "Butadienes", "Isoprene monooxygenase", "Rhodococcus", "Gene probes", "14. Life underwater", "Phylogeny", "Soil Microbiology", "DNA Primers", "0303 health sciences", "Bacteria", "Research", "isoA", "QR100-130", "QR Microbiology", "Sequence Analysis", " DNA", "15. Life on land", "Sphingomonadaceae", "Biodegradation", " Environmental", "13. Climate action"]}, "links": [{"href": "https://ueaeprints.uea.ac.uk/id/eprint/69294/1/Published_manuscript.pdf"}, {"href": "http://link.springer.com/content/pdf/10.1186/s40168-018-0607-0.pdf"}, {"href": "https://repository.essex.ac.uk/23630/1/s40168-018-0607-0.pdf"}, {"href": "https://doi.org/10.1186/s40168-018-0607-0"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microbiome", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1186/s40168-018-0607-0", "name": "item", "description": "10.1186/s40168-018-0607-0", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1186/s40168-018-0607-0"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-12-01T00:00:00Z"}}, {"id": "10.1111/1462-2920.16149", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-07-26T16:18:27Z", "type": "Journal Article", "created": "2022-08-03", "title": "\u2018Omics-guided prediction of the pathway for metabolism of isoprene by Variovorax sp. WS11", "description": "Abstract

Bacteria that inhabit soils and the leaves of trees partially mitigate the release of the abundant volatile organic compound, isoprene (2\uffe2\uff80\uff90methyl\uffe2\uff80\uff901,3\uffe2\uff80\uff90butadiene). While the initial steps of isoprene metabolism were identified in Rhodococcus sp. AD45 two decades ago, the isoprene metabolic pathway still remains largely undefined. Limited understanding of the functions of isoG, isoJ and aldH and uncertainty in the route of isoprene\uffe2\uff80\uff90derived carbon into central metabolism have hindered our understanding of isoprene metabolism. These previously uncharacterised iso genes are essential in Variovorax sp. WS11, determined by targeted mutagenesis. Using combined \uffe2\uff80\uff98omics\uffe2\uff80\uff90based approaches, we propose the complete isoprene metabolic pathway. Isoprene is converted to propionyl\uffe2\uff80\uff90CoA, which is assimilated by the chromosomally encoded methylmalonyl\uffe2\uff80\uff90CoA pathway, requiring biotin and vitamin B12, with the plasmid\uffe2\uff80\uff90encoded methylcitrate pathway potentially providing robustness against limitations in these vitamins. Key components of this pathway were induced by both isoprene and its initial oxidation product, epoxyisoprene, the principal inducer of isoprene metabolism in both Variovorax sp. WS11 and Rhodococcus sp. AD45. Analysis of the genomes of distinct isoprene\uffe2\uff80\uff90degrading bacteria indicated that all of the genetic components of the methylcitrate and methylmalonyl\uffe2\uff80\uff90CoA pathways are not always present in isoprene degraders, although incorporation of isoprene\uffe2\uff80\uff90derived carbon via propionyl\uffe2\uff80\uff90CoA and acetyl\uffe2\uff80\uff90CoA is universally indicated.

", "keywords": ["Comamonadaceae", "0301 basic medicine", "570", "0303 health sciences", "03 medical and health sciences", "Hemiterpenes", "Butadienes", "Rhodococcus", "Research Articles", "Carbon"], "contacts": [{"organization": "Dawson, Robin A., Rix, Gregory D., Crombie, Andrew T., Murrell, J. Colin,", "roles": ["creator"]}]}, "links": [{"href": "https://ueaeprints.uea.ac.uk/id/eprint/87123/1/Environmental_Microbiology_2022_Dawson_Omics_guided_prediction_of_the_pathway_for_metabolism_of_isoprene_by.pdf"}, {"href": "https://onlinelibrary.wiley.com/doi/pdf/10.1111/1462-2920.16149"}, {"href": "https://doi.org/10.1111/1462-2920.16149"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Microbiology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/1462-2920.16149", "name": "item", "description": "10.1111/1462-2920.16149", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/1462-2920.16149"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-08-05T00:00:00Z"}}, {"id": "10.1111/ejss.13488", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:18:31Z", "type": "Journal Article", "title": "Effectiveness of soil management strategies for mitigation of N2O emissions in European arable land: A meta\u2010analysis", "description": "Soil management strategies involving the application of organic matter (OM) inputs (crop residues, green and livestock manure, slurry, digestate, compost and biochar) can increase soil carbon storage but simultaneously lead to an increase in non-CO2 greenhouse gas (GHG) emissions such as N2O. Although multiple meta-analyses have been conducted on the topic of OM input impacts on GHG, none has focused specifically on European arable soils. This study plugs this gap and can assist policymakers in steering European agriculture in a more sustainable direction. The objective of this meta-analysis was to quantify how OM inputs of different nature and quality, but also the application strategy, can mitigate soil N2O emissions in different pedoclimatic conditions in Europe. We quantitatively synthesised the results of over 50 field experiments conducted in 15 European countries. Diverse arable crops, mainly cereals, were cultivated in monoculture or in crop rotations on mineral soils. Cumulative N2O emissions were monitored during periods of 30\u20131070 days in treatments, which received OM inputs, alone or in combination with mineral N fertiliser; and in controls fertilised with mineral N. The overall effect of OM inputs had a slight tendency to reduce N2O emissions by 10% (n = 53). With the increasing carbon-to-nitrogen ratio of the OM inputs, this mitigation effect became more pronounced. In particular, compost and biochar significantly reduced N2O emissions by 25% (n = 6) and 33% (n = 8) respectively. However, their effect strongly depended on pedoclimatic characteristics. Regarding the other types of OM inputs studied, a slight N2O emission reduction can be achieved by their application alone, without mineral N fertiliser (by 16%, n = 17). In contrast, their co-application with mineral N fertiliser elevated emissions to some extent compared to the control (by 14%, n = 22). We conclude that amongst the seven OM inputs studied, the application of compost and biochar are the most promising soil management practices, ...", "keywords": ["nitrous oxide", "effect size", "EJPSOIL", "organic matter inputs", "pedoclimatic characteristics", "630", "climate change mitigation"], "contacts": [{"organization": "Valkama, Elena, Tzemi, Domna, Esparza\u2010Robles, Ulises Ramon, Syp, Alina, O'Toole, Adam, Maenhout, Peter,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1111/ejss.13488"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/European%20Journal%20of%20Soil%20Science", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/ejss.13488", "name": "item", "description": "10.1111/ejss.13488", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/ejss.13488"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"null": "date"}}, {"id": "10.1111/ejss.70078", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-07-26T16:18:31Z", "type": "Journal Article", "created": "2025-03-11", "title": "The Effect of Crop Diversification and Season on Microbial Carbon Use Efficiency Across a European Pedoclimatic Gradient", "description": "ABSTRACT

Microbial transformation of soil organic matter plays a critical role in carbon (C) cycling making it essential to understand how land use and management practices influence microbial physiology and its connection to C dynamics. One factor that is likely to impact soil microbial physiology is crop diversification via its influence on belowground diversity (e.g., chemical heterogeneity of C inputs, microbial community composition). However, the effect of crop diversification measures on microbial physiology and potential effects on C cycling in agricultural soils is still unclear. To address this knowledge gap, we sampled topsoil from eight experimental sites covering different crop diversification measures across Europe (i.e., cover crops, ley farming, vegetation stripes). We used the 18O\uffe2\uff80\uff90labelling method to analyse microbial C use efficiency (CUE), growth, respiration and biomass C. Additionally, a second sampling at five selected sites examined whether the growing season influenced the impact of crop diversification. Meta\uffe2\uff80\uff90analysis revealed no overall effect of crop diversification on CUE, microbial activity, biomass or soil organic C (SOC). However, the effects varied with the type of diversification measure: cover crops did not affect carbon processing, vegetation stripes increased microbial activity, and ley farming enhanced CUE. The largest variation in CUE was observed between samplings at the same sites, indicating seasonal dynamics. Temperature, precipitation and photosynthetically active radiation predicted seasonal variation in CUE (R2\uffe2\uff80\uff89=\uffe2\uff80\uff890.36). While cover crops did not significantly impact C storage in our study, both ley farming and vegetation stripes increased SOC. The overall effect of crop diversification on SOC seems to be decoupled from highly temporally variable CUE in the bulk soil and rather relate to C\uffe2\uff80\uff90inputs.Isoprene is a highly abundant climate-active gas and a carbon source for some bacteria. Analyses of the genes encoding isoprene monooxygenase (IsoMO) indicate this enzyme is a soluble diiron center monooxygenase in the same family of oxygenases as soluble methane monooxygenase, alkene monooxygenase, and toluene monooxygenase.

", "keywords": ["0301 basic medicine", "570", "0303 health sciences", "03 medical and health sciences", "Hemiterpenes", "Butadienes", "Oxygenases", "Rhodococcus", "Enzymology and Protein Engineering", "540", "Carbon", "Mixed Function Oxygenases", "3. Good health"]}, "links": [{"href": "https://ueaeprints.uea.ac.uk/id/eprint/84237/1/Published_Version.pdf"}, {"href": "https://journals.asm.org/doi/pdf/10.1128/aem.00029-22"}, {"href": "https://doi.org/10.1128/aem.00029-22"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20and%20Environmental%20Microbiology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1128/aem.00029-22", "name": "item", "description": "10.1128/aem.00029-22", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1128/aem.00029-22"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-04-12T00:00:00Z"}}, {"id": "10.3929/ethz-b-000640921", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:21:10Z", "type": "Journal Article", "title": "Mineral transformations of ferrihydrite and lepidocrocite in suspension and in paddy soil: A closer look at the effects of silicate, phosphate, and the soil matrix", "description": "unspecifiedIron (Fe) (oxyhydr)oxides, such as ferrihydrite and lepidocrocite, are ubiquitous in soils. Due to their high surface area, Fe (oxyhydr)oxides constitute important sorbents for nutrients and contaminants in the soil, including silicate and phosphate. Under sub- or anoxic conditions in water-saturated or submerged soils, Fe(III) acts as an alternative electron acceptor during the microbial metabolization of organic matter. This leads to the reductive dissolution of Fe (oxyhydr)oxides, the formation of Fe(II) and the potential release of adsorbed components. The presence of Fe(II) accelerates the transformation of ferrihydrite and lepidocrocite to more crystalline Fe minerals, such as goethite or magnetite. Silicate and phosphate can interfere with these mineral transformations. However, how silicate and phosphate impact the trajectory and mineral products of ferrihydrite and lepidocrocite transformation has not been fully resolved yet. Up to now, Fe mineral transformations have mainly been studied in simplified model systems, such as mineral suspensions, but rarely in soil. Further, transformations of ferrihydrite and lepidocrocite in soils during redox cycles, including the recurring reduction and oxidation of Fe, remain obscure. Redox active soils include paddy soils which are crucial for the global production of rice as a staple food. This thesis investigated factors that govern Fe (oxyhydr)oxide transformations in redox active paddy soils. The doctoral project was designed to move consecutively from controlled laboratory to in-situ field experiments. In all experiments, the stable isotope 57Fe was used as a tracer in combination with isotope analysis of dissolved and solid phases and/or 57Fe M\u00f6ssbauer spectroscopy. In the first part of this thesis, the effect of silicate on Fe(II)-catalyzed transformation of ferrihydrite and lepidocrocite was examined in mineral suspensions spiked with 57Fe(II) at two Fe(II):Fe(III) molar ratios. The reactivity of ferrihydrite towards 57Fe(II) adsorption and Fe atom exchange with dissolved 57Fe(II) was only marginally impacted by coprecipitated silicate. Silicate hindered ferrihydrite transformation to goethite and magnetite as compared to silicate-free ferrihydrite. During mineral transformation, coprecipitated silicate led to the formation of thicker lepidocrocite crystallites from ferrihydrite and silicate was redistributed in the solid phase. For lepidocrocite, magnetite formed at the higher Fe(II):Fe(III) molar ratio. This contrasts the decreased Fe atom exchange and inhibited mineral transformation in the presence of surface-adsorbed silicate on lepidocrocite surfaces. The results demonstrate that silicate strongly interferes with Fe mineral transformations whereas the mineral reactivity towards Fe(II) adsorption and Fe atom exchange can remain high. In a following experiment, the transformation of ferrihydrite and lepidocrocite during three redox cycles was studied in laboratory mesocosms filled with paddy soil. To understand the effect of the soil matrix on mineral transformations, minerals were incubated either as minerals without the addition of soil or as 57Fe-labeled mineral-soil mixes in mesh bags. The results showed that ferrihydrite and lepidocrocite transformed to goethite and/or magnetite when incubated as mineral mesh bags without soil. When ferrihydrite and lepidocrocite were mixed with soil, a mixed valent and highly disordered Fe phase formed. Goethite additionally formed in lepidocrocite-soil mixes. Throughout repeated redox cycles, solid-associated Fe(II) fractions in mineral-soil mixes during anoxic periods increased, suggesting an increasing extent of Fe mineral reduction. The outcomes of this study showed that Fe mineral transformations are strongly impacted when minerals are exposed to the soil matrix, which can lead to highly disordered instead of crystalline Fe mineral transformation products. In a final experiment, the in-situ transformation of Fe oxyhydroxides and the effect of phosphate were investigated in a field-incubation of minerals in a flooded rice paddy soil in Thailand. Ferrihydrite, lepidocrocite and phosphate-adsorbed ferrihydrite were incubated using mesh bags, containing the minerals without soil or 57Fe-labeled mineral-soil mixes. The field-incubation of ferrihydrite and lepidocrocite in mineral mesh bags without soil resulted in goethite formation with a much larger transformation extent in ferrihydrite. With pre-adsorbed phosphate, the transformation of ferrihydrite was strongly hindered. In mineral-soil mixes ferrihydrite and lepidocrocite transformed to goethite to a similar extent. Pre-adsorbed phosphate on ferrihydrite surfaces strongly hindered mineral transformation in the mineral-soil mixes but enhanced Fe reduction compared to phosphate-free ferrihydrite. These findings demonstrate the dual role of phosphate during mineral transformations when minerals are closely associated or in direct contact with the soil matrix. The outcomes of this thesis highlight the importance of considering silicate and phosphate interactions with Fe (oxyhydr)oxides, by demonstrating their strong impact on the trajectory of mineral transformations. Mineral transformations in soil have been shown in this thesis to be much slower compared to mineral suspension experiments. Further, when minerals are closely associated or in direct contact with the soil matrix, highly disordered Fe phases can form instead of crystalline Fe minerals. Such disordered Fe phases can be highly reactive, as this work demonstrated for the exposure to redox cycles. Collectively, the gained insights contribute to a better assessment of Fe cycling in redox-active soils which can control nutrient and contaminant mobility in the environment.", "keywords": ["Transformations", "Field study", "iron reduction", "15. Life on land", "laboratory study", "6. Clean water", "Lepidocrocite", "Natural sciences", "Ferrihydrite", "Rice paddy", "Redox reactions", "iron minerals", "FOS: Natural sciences", "info:eu-repo/classification/ddc/500"], "contacts": [{"organization": "Schulz, Katrin", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.3929/ethz-b-000640921"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Thesis/Dissertation", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3929/ethz-b-000640921", "name": "item", "description": "10.3929/ethz-b-000640921", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3929/ethz-b-000640921"}, {"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": "10.2139/ssrn.4173912", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:20:13Z", "type": "Journal Article", "created": "2022-07-28", "title": "How the Structure of Per- and Polyfluoroalkyl Substances (Pfas) Influences Their Binding Potency to the Peroxisome Proliferator-Activated and Thyroid Hormone Receptors \u2013 an in Silico Screening Study", "description": "

In this study, we investigated PFAS (per- and polyfluoroalkyl substances) binding potencies to nuclear hormone receptors (NHRs): peroxisome proliferator-activated receptors (PPARs) \u03b1, \u03b2, and \u03b3 and thyroid hormone receptors (TRs) \u03b1 and \u03b2. We have simulated the docking scores of 43 perfluoroalkyl compounds and based on these data developed QSAR (Quantitative Structure-Activity Relationship) models for predicting the binding probability to five receptors. In the next step, we implemented the developed QSAR models for the screening approach of a large group of compounds (4464) from the NORMAN Database. The in silico analyses indicated that the probability of PFAS binding to the receptors depends on the chain length, the number of fluorine atoms, and the number of branches in the molecule. According to the findings, the considered PFAS group bind to the PPAR\u03b1, \u03b2, and \u03b3 only with low or moderate probability, while in the case of TR \u03b1 and \u03b2 it is similar except that those chemicals with longer chains show a moderately high probability of binding.

", "keywords": ["0301 basic medicine", "Fluorocarbons", "0303 health sciences", "Receptors", " Thyroid Hormone", "binding probability", "peroxisome proliferator-activated receptor", "QSAR", "PFAS", "H2020", "thyroid receptor", "Organic chemistry", "Quantitative Structure-Activity Relationship", "molecular docking", "virtual screening", "PROMISCES", "MLR", "Article", "03 medical and health sciences", "perfluoroalkyl compounds", "QD241-441", "in silico", "Peroxisome Proliferators", "perfluoroalkyl compounds; PFAS; peroxisome proliferator-activated receptor; thyroid receptor; QSAR; MLR; in silico; binding probability; molecular docking; virtual screening"]}, "links": [{"href": "http://www.mdpi.com/1420-3049/28/2/479/pdf"}, {"href": "https://www.mdpi.com/1420-3049/28/2/479/pdf"}, {"href": "https://doi.org/10.2139/ssrn.4173912"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/SSRN%20Electronic%20Journal", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.2139/ssrn.4173912", "name": "item", "description": "10.2139/ssrn.4173912", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.2139/ssrn.4173912"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-01-01T00:00:00Z"}}, {"id": "10.2166/wst.2018.398", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:20:15Z", "type": "Journal Article", "created": "2018-10-04", "title": "Sensitivity analysis for an elemental sulfur-based two-step denitrification model", "description": "Abstract

A local sensitivity analysis was performed for a chemically synthesized elemental sulfur (S0)-based two-step denitrification model, accounting for nitrite (NO2\uffe2\uff88\uff92) accumulation, biomass growth and S0 hydrolysis. The sensitivity analysis was aimed at verifying the model stability, understanding the model structure and individuating the model parameters to be further optimized. The mass specific area of the sulfur particles (a*) and hydrolysis kinetic constant (k1) were identified as the dominant parameters on the model outputs, i.e. nitrate (NO3\uffe2\uff88\uff92), NO2\uffe2\uff88\uff92 and sulfate (SO42\uffe2\uff88\uff92) concentrations, confirming that the microbially catalyzed S0 hydrolysis is the rate-limiting step during S0-driven denitrification. Additionally, the maximum growth rates of the denitrifying biomass on NO3\uffe2\uff88\uff92 and NO2\uffe2\uff88\uff92 were detected as the most sensitive kinetic parameters.

", "keywords": ["Elemental sulfur", "Environmental Engineering", "0207 environmental engineering", "Biological surface-based hydrolysis; Elemental sulfur; Mathematical modeling; Sensitivity analysis; Two-step autotrophic denitrification; Environmental Engineering; Water Science and Technology", "02 engineering and technology", "01 natural sciences", "Two-step autotrophic denitrification", "Bioreactors", "European Joint Doctorates", "European Commission", "Knowmad Institut", "Biological surface-based hydrolysis", "Nitrites", "Netherlands", "Water Science and Technology", "0105 earth and related environmental sciences", "Aurora Universities Network", "EC", "Nitrates", "H2020", "Energy Research", "13. Climate action", "Denitrification", "Mathematical modeling", "Sensitivity analysis", "Sulfur"]}, "links": [{"href": "https://www.iris.unina.it/bitstream/11588/724909/2/2018%20-%20Kostrytsia%20et%20al.%20-%20Water%20Science%20%26%20Technology%20-%20Sensitivity%20analysis%20for%20S0-based%20denitrification%20model.pdf"}, {"href": "http://iwaponline.com/wst/article-pdf/78/6/1296/504647/wst078061296.pdf"}, {"href": "https://doi.org/10.2166/wst.2018.398"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Water%20Science%20and%20Technology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.2166/wst.2018.398", "name": "item", "description": "10.2166/wst.2018.398", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.2166/wst.2018.398"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-09-20T00:00:00Z"}}, {"id": "10.25384/sage.c.4412903.v1", "type": "Feature", "geometry": null, "properties": {"license": "unspecified", "updated": "2026-07-26T16:20:24Z", "type": "Dataset", "created": "2019-02-23", "title": "The Efficacy of Cognitive Behavioral Therapy to Treat Depression and Anxiety and Improve Quality of Life Among Early-Stage Breast Cancer Patients", "description": "Purpose: Positive results have appeared among nonmetastatic breast cancer patients with the use of cognitive behavioral therapy (CBT). However, earlier stage patient results have been mixed. This novelty of this study was the focus on stage I and II breast cancer patients. The objective of the current study was to conduct a meta-analysis of psychosocial functions in early-stage breast cancer survivors to determine its efficacy. Methods: A search of Cochrane Library, EMBASE, MEDLINE, PsycInfo, and PubMed yielded 3237 abstracts, which were independently evaluated by research pairs. Meta-analysis was conducted on 8 studies that included a total of 1053 patients. Psychosocial functions were categorized according to 3 domains: (1) anxiety, (2) depression, and (3) quality of life. Results: Improvement in anxiety was observed in patients treated with CBT relative to controls without CBT (P = .04). Depression and quality of life improvement was not observed in the CBT group within or after 4 months of treatment (P > .05). Conclusions: The results indicated that observed improvements in anxiety in patients with early-stage breast cancer were moderate. The effectiveness of CBT for the improvement of patient outcomes could not be determined, given the methodological and clinical shortcomings of the included trials.", "keywords": ["111708 Health and Community Services", "FOS: Clinical medicine", "111702 Aged Health Care", "FOS: Health sciences", "110306 Endocrinology", "111299 Oncology and Carcinogenesis not elsewhere classified"], "contacts": [{"organization": "Haoyao Sun, Hualei Huang, Shengjun Ji, Xiaochen Chen, Yongqing Xu, Fenglan Zhu, Jinchang Wu,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.25384/sage.c.4412903.v1"}, {"rel": "self", "type": "application/geo+json", "title": "10.25384/sage.c.4412903.v1", "name": "item", "description": "10.25384/sage.c.4412903.v1", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.25384/sage.c.4412903.v1"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-01-01T00:00:00Z"}}, {"id": "10.3929/ethz-b-000648810", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:21:10Z", "type": "Journal Article", "title": "Transformation of jarosite and iron oxyhydroxides in acid sulfate paddy soils", "description": "Open AccessMinerals containing Fe are ubiquitous in soils. By providing an abundance of sites for the sorption and incorporation of major and trace elements, Fe minerals can govern the fate and behaviour of numerous pollutants and nutrients in soils. Furthermore, the reactivity of Fe in redox-dynamic soils produces a web of Fe mineral transformation processes with broad consequences for element cycling. The importance of Fe cycling is no exception in acid sulfate soils, although the high sulfur and low pH conditions produce unique Fe mineral transformation processes and compositions. In acid sulfate soils, jarosite, an Fe-K hydroxysulfate mineral, and ferrihydrite, a common short-range-ordered Fe oxyhydroxide mineral, play a central role in the pedological development of active and post-active acid sulfate soils. Soil pH and the dynamics of metals, such as aluminium, are key to understanding the toxicity of acid sulfate soils and can be directly influenced by jarosite and ferrihydrite transformation processes. Although the transformation of Fe minerals is a key component of biogeochemical processes in redox-active soils, the variables that control the rates and pathways of Fe mineral transformations in soil remain uncertain. The uncertainty arises from the difficulty of tracing molecular processes within a matrix of diverse soil components. Iron minerals are regularly characterised in soils, but the processes that explain the Fe mineral composition of soils cannot be easily resolved. An alternative approach is to perform simplified experiments, such as mixed mineral suspension experiments, under controlled laboratory conditions, to test the effect of individual variables. These systems often use synthetic minerals, although relatively pure jarosite may also be isolated from soils and tested in mixed suspension experiments. While useful to derive mechanistic understanding, the measured outcomes of mixed suspension experiments may not represent the rates and products of transformations that occur in soils. Therefore, the objective of this thesis was to gain new understanding of the stability and transformation of jarosite and ferrihydrite in acid sulfate soils by developing novel experimental techniques to follow the transformation of synthetic jarosite and ferrihydrite directly in soils. The central theme of the thesis is the comparison of jarosite and aluminium-substituted jarosite transformation in experimental media of increasing complexity. The experiments are performed under conditions that are relevant to rice paddy soils because of the importance of rice in global food production, and the unique management of rice paddies whereby regular flooding during the growing season produces distinct redox cycles. In Thailand, large areas of the Chao Phraya River delta are cultivated as rice paddies despite being acid sulfate soils, providing a suitable site to observe the effects of regular redox cycling on the biogeochemistry of Fe minerals in acid sulfate soils. The thesis begins with characterisation of synthetic and natural jarosite mineral composition and reactivity. Spectroscopic techniques (Raman spectroscopy, M\u00f6ssbauer spectroscopy and Energy-dispersive X-ray spectrometry) and X-ray diffraction (XRD) were used to assess the element substitution of mineral samples from two jarosite-alunite synthetic solid solution series. The same characterisation techniques were then applied to a sample of jarosite from an acid sulfate soil in Thailand has a natural Al-for-Fe substitution. The mineral characterisation was followed by a transformation experiment in a mixed-suspension system, similar to experimental designs that have been previously used to study mineral transformation processes. The experiment followed the transformation of the natural jarosite sample from an acid sulfate soil in Thailand and three jarosite samples with variable amounts of Al substitution. The reaction solution mimicked the pH (circumneutral) and Fe(II) content (up to 1:1 ratio of Fe(II) in solution to Fe(III) in solids) of flooded acid sulfate soils. Furthermore, using a 57Fe tracer, the simultaneous transformation processes that explained the distribution of mineral products could be resolved from one another. The transformation experiment revealed the relative reactivity of the minerals in the presence of Fe(II), and created a baseline that could be used to compare traditional mixed-suspension experiments with transformations in complex media such as soil. To advance mineral transformation experiments towards studies in which transformation processes may be followed within a soil matrix, several novel techniques were developed. In a first step, ferrihydrite was incubated for up to twelve weeks in microcosms, each containing 300 g of 5 mM CaCl2 solution and 250 g of one of five paddy soils. The ferrihydrite was buried in the soil within a mesh bag (polyethel terephthalate, 51 \u03bcm pores, 30 mm x 12 mm x 3 mm) that allowed free contact between the synthetic minerals and the pore water, but separated the minerals from direct contact with the soil matrix. The mineral products of the transformation were identified and quantified by Rietveld fitting of XRD patterns. Further, the spatial arrangements of the ferrihydrite and transformation products were measured after two weeks by Raman spectroscopy, which could be used to assess the effects of pore water chemistry and diffusion processes on mineral transformation in the mesh bags. The second step involved measuring jarosite and Al-substituted jarosite transformation in flooded topsoil and subsoils from a rice paddy located on the Bangkok Plain in Central Thailand using an adaptation of the mesh bag method. To test the effect of pore water on the transformation of jarosite in soil, mesh bags were filled with synthetic jarosite and aluminium-jarosite and incubated in topsoils and subsoils, both in laboratory mesocosms and directly in the field. Then, the effect of the soil matrix was tested by completing a parallel experiment using mesh bags containing soil that was pre-enriched with synthetic 57Fe-labelled jarosite and aluminium-substituted jarosite. To facilitate the deployment and collection of small mesh bags in large soil volumes, the mesh bags were inserted into soils using custom-designed 3D-printed sample holders. At three timepoints within twelve weeks, one set of mesh bags were removed from the soil. Transformation products were identified and quantified in the pure jarosite and aluminium-jarosite mesh bags using Rietveld fitting of XRD patterns, while the fate of the 57Fe in enriched soil mesh bags was traced using 57Fe M\u00f6ssbauer spectroscopy. Performing experiments in increasingly complex media provides an insight into the effect of experimental design on the observation of Fe mineral transformations and provides new information regarding the transformation rates and pathways of jarosite and ferrihydrite within full complexity of soil media. Indeed, this thesis demonstrates that the complex chemistry, biological activity, and physical arrangement of components in the soil have strong effects on the rate and products of jarosite and ferrihydrite transformation processes. The transformation of jarosite and Al-substituted jarosite in mixed-suspension experiments presented in this thesis, in agreement with previous mixed-suspension experiments on both jarosite and ferrihydrite, occurred within a matter of hours. By contrast, the rate of ferrihydrite, jarosite and Al-jarosite transformation in soil pore and in direct contact with the soil matrix occurred over the course of several weeks or months. In the ferrihydrite mesh bags, slow ferrihydrite transformation kinetics on the outer rim of the mesh bag, and deep in the core of the mesh bag, indicated that the sorption of chemical components of soil pore water and diffusion limitations of Fe(II) in pore water could be reasons for the slower rates of transformation in soil. In addition, both Al-for-Fe substitution and Fe(II) concentration in solution were important factors that altered the rate of mineral transformation. The different incubation conditions for jarosite and Al-jarosite also altered the products of the transformation. Whereas the hydrolysis of jarosite in the absence of Fe(II) resulted primarily in the formation of ferrihydrite, jarosite transformation in the presence of Fe(II) led to ferrihydrite, goethite and lepidocrocite formation. The Fe oxyhydroxide products were consistent with Fe(II)-catalysed transformation, and Fe(II)-catalysed recrystallisation of jarosite may have occurred concurrently. Aluminium-for-iron substitution hindered the formation of lepidocrocite formation in favour of ferrihydrite and goethite. Similar product phases occurred when jarosite and Al-jarosite were reacted with pore water from acid sulfate soils, indicating that similar transformation pathways may define the mineral products of jarosite transformations when the jarosite occurs as accumulations of pure mineral in soil. However, non- or poorly crystalline phases predominated in the transformation products when jarosite or Al-jarosite were incubated in direct contact with the soil matrix, indicating that the transformation of jarosite under these circumstances was governed by different pathways and processes. The new insights into the transformation of ferrihydrite, jarosite and Al-jarosite in acid sulfate soils demonstrate that phases previously considered meta-stable may participate in the biogeochemistry of soil over period of several months. In the context of rice cultivation, the transformation processes may affect the biogeochemistry of the soils throughout the growing season. The formation of poorly crystalline minerals following the transformation in flooded soils may have positive consequences on the sequestration of other trace and major elements that were associated with the ferrihydrite, jarosite or Al-jarosite prior to the transformation. However, the stabilisation of reduced Fe in the soil matrix may have the opposite effect, promoting the mobility of other ions in solution. The methods used to incubate jarosite and ferrihydrite in soils are easily adaptable to new experimental questions involving the behaviour of Fe-bearing minerals in soil. Therefore, the findings open up a new class of experiments within environmental mineralogy and biogeochemistry, that can help to uncover the processes that occur in the environment and explain the natural variation in the composition of Fe phases in soil.", "keywords": ["jarosite", "iron biogeochemistry", "soil chemistry", "acid sulfate soil", "laboratory study", "ferrihydrite", "soil", "soil incubation", "redox chemistry", "goethite", "iron minerals", "2. Zero hunger", "soil biogeochemistry", "info:eu-repo/classification/ddc/550", "M\u00f6ssbauer spectroscopy", "rice paddy soil", "15. Life on land", "6. Clean water", "Earth sciences", "lepidocrocite", "field study", "13. Climate action", "Raman spectroscopy", "iron oxyhydroxide", "mineral transformation", "iron minerals; mineral transformation; soil; soil chemistry; soil mineralogy; soil biogeochemistry; redox chemistry; iron biogeochemistry; acid sulfate soil; rice paddy soil; jarosite; ferrihydrite; goethite; lepidocrocite; iron oxyhydroxide; M\u00f6ssbauer spectroscopy; Raman spectroscopy; field study; laboratory study; soil incubation", "soil mineralogy"], "contacts": [{"organization": "Grigg, Andrew R.C.", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.3929/ethz-b-000648810"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Thesis/Dissertation", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3929/ethz-b-000648810", "name": "item", "description": "10.3929/ethz-b-000648810", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3929/ethz-b-000648810"}, {"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": "10.3390/ijms25105216", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:20:48Z", "type": "Journal Article", "created": "2024-05-14", "title": "Development of a Robust Read-Across Model for the Prediction of Biological Potency of Novel Peroxisome Proliferator-Activated Receptor Delta Agonists", "description": "

A robust predictive model was developed using 136 novel peroxisome proliferator-activated receptor delta (PPAR\u03b4) agonists, a distinct subtype of lipid-activated transcription factors of the nuclear receptor superfamily that regulate target genes by binding to characteristic sequences of DNA bases. The model employs various structural descriptors and docking calculations and provides predictions of the biological activity of PPAR\u03b4 agonists, following the criteria of the Organization for Economic Co-operation and Development (OECD) for the development and validation of quantitative structure\u2013activity relationship (QSAR) models. Specifically focused on small molecules, the model facilitates the identification of highly potent and selective PPAR\u03b4 agonists and offers a read-across concept by providing the chemical neighbours of the compound under study. The model development process was conducted on Isalos Analytics Software (v. 0.1.17) which provides an intuitive environment for machine-learning applications. The final model was released as a user-friendly web tool and can be accessed through the Enalos Cloud platform\u2019s graphical user interface (GUI).

", "keywords": ["0301 basic medicine", "570", "610", "Quantitative Structure-Activity Relationship", "molecular docking", "01 natural sciences", "Isalos Analytics Platform", "in silico modelling", "Article", "0104 chemical sciences", "Molecular Docking Simulation", "Machine Learning", "03 medical and health sciences", "machine learning", "PPAR\u03b4 agonist", "Humans", "PPAR delta", "Software"]}, "links": [{"href": "https://www.mdpi.com/1422-0067/25/10/5216/pdf"}, {"href": "https://doi.org/10.3390/ijms25105216"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/International%20Journal%20of%20Molecular%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/ijms25105216", "name": "item", "description": "10.3390/ijms25105216", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/ijms25105216"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-05-10T00:00:00Z"}}, {"id": "10.3390/microorganisms8050774", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:20:51Z", "type": "Journal Article", "created": "2020-05-21", "title": "Comparative Genomics of the Rhodococcus Genus Shows Wide Distribution of Biodegradation Traits", "description": "

The genus Rhodococcus exhibits great potential for bioremediation applications due to its huge metabolic diversity, including biotransformation of aromatic and aliphatic compounds. Comparative genomic studies of this genus are limited to a small number of genomes, while the high number of sequenced strains to date could provide more information about the Rhodococcus diversity. Phylogenomic analysis of 327 Rhodococcus genomes and clustering of intergenomic distances identified 42 phylogenomic groups and 83 species-level clusters. Rarefaction models show that these numbers are likely to increase as new Rhodococcus strains are sequenced. The Rhodococcus genus possesses a small \u201chard\u201d core genome consisting of 381 orthologous groups (OGs), while a \u201csoft\u201d core genome of 1253 OGs is reached with 99.16% of the genomes. Models of sequentially randomly added genomes show that a small number of genomes are enough to explain most of the shared diversity of the Rhodococcus strains, while the \u201copen\u201d pangenome and strain-specific genome evidence that the diversity of the genus will increase, as new genomes still add more OGs to the whole genomic set. Most rhodococci possess genes involved in the degradation of aliphatic and aromatic compounds, while short-chain alkane degradation is restricted to a certain number of groups, among which a specific particulate methane monooxygenase (pMMO) is only found in Rhodococcus sp. WAY2. The analysis of Rieske 2Fe-2S dioxygenases among rhodococci genomes revealed that most of these enzymes remain uncharacterized.

", "keywords": ["0301 basic medicine", "QH301-705.5", "Comparative genomics", "Phylogenomics", "phylogenomics", "comparative genomics", "Biolog\u00eda y Biomedicina / Biolog\u00eda", "biodegradation", "Article", "03 medical and health sciences", "Biodegradation", "Rhodococcus", "Biology (General)", "Rhodococcus; comparative genomics; phylogenomics; biodegradation", "Rhodococcus"]}, "links": [{"href": "http://www.mdpi.com/2076-2607/8/5/774/pdf"}, {"href": "https://www.mdpi.com/2076-2607/8/5/774/pdf"}, {"href": "https://doi.org/10.3390/microorganisms8050774"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microorganisms", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/microorganisms8050774", "name": "item", "description": "10.3390/microorganisms8050774", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/microorganisms8050774"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-05-21T00:00:00Z"}}, {"id": "10.3390/w10101457", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:21:02Z", "type": "Journal Article", "created": "2018-10-16", "title": "Removal of Natural Organic Matter and Organic Micropollutants during Riverbank Filtration in Krajkowo, Poland", "description": "

The aim of this article is to evaluate the removal of natural organic matter and micropollutants at a riverbank filtration site in Krajkowo, Poland, and its dependence on the distance between the wells and the river and related travel times. A high reduction in dissolved organic carbon (40\uffe2\uff80\uff9342%), chemical oxygen demand (65\uffe2\uff80\uff9370%), and colour (42\uffe2\uff80\uff9347%) was found in the riverbank filtration wells at a distance of 60\uffe2\uff80\uff9380 m from the river. A lower reduction in dissolved organic carbon (26%), chemical oxygen demand (42%), and colour (33%) was observed in a horizontal well. At greater distances of the wells from the river, the removal of pharmaceutical residues and pesticides was in the range of 52\uffe2\uff80\uff9366% and 55\uffe2\uff80\uff9366%, respectively. The highest removal of pharmaceutical residues and pesticides was found in a well located 250 m from the river and no micropollutants were detected in a well located 680 m from the river. The results provide evidence of the high efficacy of riverbank filtration for contaminant removal.

", "keywords": ["riverbank filtration", "removal efficacy", "13. Climate action", "pharmaceutical residues", "0208 environmental biotechnology", "0207 environmental engineering", "dissolved organic carbon (DOC)", "pesticides", "02 engineering and technology", "6. Clean water"]}, "links": [{"href": "http://www.mdpi.com/2073-4441/10/10/1457/pdf"}, {"href": "https://doi.org/10.3390/w10101457"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Water", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/w10101457", "name": "item", "description": "10.3390/w10101457", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/w10101457"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-10-16T00:00:00Z"}}, {"id": "10.5061/dryad.5t76p", "type": "Feature", "geometry": null, "properties": {"license": "unspecified", "updated": "2026-07-26T16:21:22Z", "type": "Dataset", "title": "Data from: High nighttime humidity and dissolved organic carbon content support rapid decomposition of standing litter in a semi-arid landscape", "description": "unspecifiedDataset_Wang et al. 2017The file contains all the original data including the temperature, relative humidity, litter mass remaining, litter DOC concentrations and cumulative C loss.", "keywords": ["nighttime humidity", "13. Climate action", "standing litter", "PLFA", "SOC", "15. Life on land", "DOC", "microbial activity"], "contacts": [{"organization": "Wang, Jing, Liu, Lingli, Wang, Xin, Yang, Sen, Zhang, Beibei, Li, Ping, Qiao, Chunlian, Deng, Meifeng, Liu, Weixing,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5061/dryad.5t76p"}, {"rel": "self", "type": "application/geo+json", "title": "10.5061/dryad.5t76p", "name": "item", "description": "10.5061/dryad.5t76p", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5061/dryad.5t76p"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-02-06T00:00:00Z"}}, {"id": "10.5061/dryad.sq72d", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:21:31Z", "type": "Dataset", "title": "Data from: Multiple stressors and the cause of amphibian abnormalities", "description": "unspecifiedThe repeated occurrence of abnormal amphibians in nature points to ecological imbalance, yet identifying causes of these abnormalities has proved complex. Multiple studies have linked amphibian abnormalities to chemically contaminated areas, but inference about causal mechanisms is lacking. Here we use a high incidence of abnormalities in Alaskan wood frogs to strengthen inference about the mechanism for these abnormalities. We suggest that limb abnormalities are caused by a combination of multiple stressors. Specifically, toxicants lead to increased predation, resulting in more injuries to developing limbs and subsequent developmental malformations. We evaluated a variety of putative causes of frog abnormalities at 21 wetlands on the Kenai National Wildlife Refuge, south-central Alaska, USA, between 2004 and 2006. Variables investigated were organic and inorganic contaminants, parasite infection, abundance of predatory invertebrates, UVB, and temperature. Logistic regression and model comparison using the Akaike information criterion (AIC) identified dragonflies and both organic and inorganic contaminants as predictors of the frequency of skeletal abnormalities. We suggest that both predators and contaminants alter ecosystem dynamics to increase the frequency of amphibian abnormalities in contaminated habitat. Future experiments should test the causal mechanisms by which toxicants and predators may interact to cause amphibian limb abnormalities.", "keywords": ["Lithobates sylvaticus", "metal", "Annelida", "lentic", "DOC", "2000-2012", "present", "Hemiptera", "Arachnida", "Amphipoda", "14. Life underwater", "Invertebrate", "Ephemeroptera", "Branchiopoda", "disease", "Trichoptera", "Diptera", "abnormality", "anion", "15. Life on land", "6. Clean water", "wetland", "frog", "malformation", "Water quality", "2010-2012", "amphibian"], "contacts": [{"organization": "Reeves, Mari K., Perdue, Margaret, Holyoak, Marcel, Hagedorn, Birgit, Rinella, Daniel, Bogan, Daniel, Munk, LeeAnn, Battaglin, William, Dolph, Christine L., Trust, Kimberly A.,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5061/dryad.sq72d"}, {"rel": "self", "type": "application/geo+json", "title": "10.5061/dryad.sq72d", "name": "item", "description": "10.5061/dryad.sq72d", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5061/dryad.sq72d"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2014-09-29T00:00:00Z"}}, {"id": "10.5281/zenodo.10907111", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:22:10Z", "type": "Dataset", "created": "2023-10-13", "title": "Database to: Effectiveness of soil management strategies for mitigation of N2O emissions in European arable land: A meta-analysis", "description": "Database to a meta-analysis studing the effects of adding different organic matter inputs (crop residues, green manure, livestock manure, slurry, digestate, compost or biochar) to soils on N2O emissions. Database consists of over 50 field experiments conducted in 15 European countries. Diverse arable crops, mainly cereals, were cultivated in monoculture or in crop rotations on mineral soils. \u00a0Cumulative N2O emissions per unit land area were monitored during periods of 30 to 1,070 days in treatments, which received organic matter inputs, alone or in combination with mineral N fertiliser; and in controls fertilised with mineral N. The original results appeared in 46 articles published between 1993 and 2022 in peer-reviewed scientific journals, as well as a project report, and a PhD thesis.", "keywords": ["meta-analysis", "nitous oxide", "EJPSOIL", "effect size", "N2O", "organic matter inputs", "pedoclimatic characteristics", "field experiments"]}, "links": [{"href": "https://doi.org/10.5281/zenodo.10907111"}, {"rel": "self", "type": "application/geo+json", "title": "10.5281/zenodo.10907111", "name": "item", "description": "10.5281/zenodo.10907111", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5281/zenodo.10907111"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-04-02T00:00:00Z"}}, {"id": "10.5281/zenodo.10907112", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:22:10Z", "type": "Dataset", "created": "2023-10-13", "title": "Database to: Effectiveness of soil management strategies for mitigation of N2O emissions in European arable land: A meta-analysis", "description": "Database to a meta-analysis studing the effects of adding different organic matter inputs (crop residues, green manure, livestock manure, slurry, digestate, compost or biochar) to soils on N2O emissions. Database consists of over 50 field experiments conducted in 15 European countries. Diverse arable crops, mainly cereals, were cultivated in monoculture or in crop rotations on mineral soils. \u00a0Cumulative N2O emissions per unit land area were monitored during periods of 30 to 1,070 days in treatments, which received organic matter inputs, alone or in combination with mineral N fertiliser; and in controls fertilised with mineral N. The original results appeared in 46 articles published between 1993 and 2022 in peer-reviewed scientific journals, as well as a project report, and a PhD thesis.", "keywords": ["meta-analysis", "nitous oxide", "EJPSOIL", "effect size", "N2O", "organic matter inputs", "pedoclimatic characteristics", "field experiments"]}, "links": [{"href": "https://doi.org/10.5281/zenodo.10907112"}, {"rel": "self", "type": "application/geo+json", "title": "10.5281/zenodo.10907112", "name": "item", "description": "10.5281/zenodo.10907112", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5281/zenodo.10907112"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-04-02T00:00:00Z"}}, {"id": "10.5281/zenodo.1211769", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:22:16Z", "type": "Dataset", "title": "A global distribution of dissolved organic carbon in soil and in leaching - (database)", "description": "Current global carbon (C) models are not representing the fraction of C which is displaced along the terrestrial aquatic continuum thus overestimating the land sink capacity. In order to obtain more reliable C budgets, we need to integrate the lateral transfers of C from terrestrial ecosystems through the inland water network down to the oceans, including biogeochemical transformation during transport and C exchange with the atmosphere.Representing the production and cycling of dissolved organic C (DOC) in the soil column and the leaching of DOC into the inland water network is a first major step in this development. In this study we used newly developed model JULES-DOCM to obtain the first global estimate of global soil DOC stock and DOC concentration, DOC concentration in runoff and DOC leaching flux. In this dataset model produced files are stored as netcdf files including soil DOC stocks (at Top (0-35 cm) and Total soil (0-300cm), soil DOC concentration (at Top (0-35 cm) and Bottom ( 35-300cm)), DOC leaching flux (averaged over 1980-2010) and DOC concentration in runoff (averaged over 1980-2010). The measured DOC collected database is enclosed as the Excel file.", "keywords": ["13. Climate action", "15. Life on land", "Dissolved organic carbon", "DOC leaching"], "contacts": [{"organization": "Nakhavali, Mahdi", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5281/zenodo.1211769"}, {"rel": "self", "type": "application/geo+json", "title": "10.5281/zenodo.1211769", "name": "item", "description": "10.5281/zenodo.1211769", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5281/zenodo.1211769"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-04-03T00:00:00Z"}}, {"id": "2904514118", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:25:52Z", "type": "Journal Article", "created": "2018-12-12", "title": "Sensitivity of labile carbon fractions to tillage and organic matter management and their potential as comprehensive soil quality indicators across pedoclimatic conditions in Europe", "description": "Abstract Soil quality is defined as the capacity of the soil to perform multiple functions, and can be assessed by measuring soil chemical, physical and biological parameters. Among soil parameters, labile organic carbon is considered to have a primary role in many soil functions related to productivity and environmental resilience. Our study aimed at assessing the suitability of different labile carbon fractions, namely dissolved organic carbon (DOC), hydrophilic DOC (Hy-DOC), permanganate oxidizable carbon (POXC, also referred to as Active Carbon), hot water extractable carbon (HWEC) and particulate organic matter carbon (POMC) as soil quality indicators in agricultural systems. To do so, we tested their sensitivity to two agricultural management factors (tillage and organic matter input) in 10 European long-term field experiments (LTEs), and we assessed the correlation of the different labile carbon fractions with physical, chemical and biological soil quality indicators linked to soil functions. We found that reduced tillage and high organic matter input increase concentrations of labile carbon fractions in soil compared to conventional tillage and low organic matter addition, respectively. POXC and POMC were the most sensitive fractions to both tillage and fertilization across the 10 European LTEs. In addition, POXC was the labile carbon fraction most positively correlated with soil chemical (total organic carbon, total nitrogen, and cation exchange capacity), physical (water stable aggregates, water holding capacity, bulk density) and biological soil quality indicators (microbial biomass carbon and nitrogen, and soil respiration). We conclude that POXC represents a labile carbon fraction sensitive to soil management and that is the most informative about total soil organic matter, nutrients, soil structure, and microbial pools and activity, parameters commonly used as indicators of various soil functions, such as C sequestration, nutrient cycling, soil structure formation and soil as a habitat for biodiversity. Moreover, POXC measurement is relatively cheap, fast and easy. Therefore, we suggest measuring POXC as the labile carbon fraction in soil quality assessment schemes in addition to other valuable soil quality indicators.", "keywords": ["2. Zero hunger", "Dissolved organic carbon (DOC)", "Hydrophilic dissolved organic carbon (Hy-DOC)", "Permanganate oxidizable carbon (POXC)", "13. Climate action", "Long-term experimental field (LTEs)", "Hot water extractable carbon (HWEC)", "0401 agriculture", " forestry", " and fisheries", "04 agricultural and veterinary sciences", "15. Life on land", "Particulate organic matter carbon (POMC)"]}, "links": [{"href": "https://doi.org/2904514118"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecological%20Indicators", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "2904514118", "name": "item", "description": "2904514118", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/2904514118"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-04-01T00:00:00Z"}}, {"id": "2949948697", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:25:54Z", "type": "Journal Article", "created": "2019-06-14", "title": "Monitoring the impact of desert dust outbreaks for air quality for health studies", "description": "We review the major features of desert dust outbreaks that are relevant to the assessment of dust impacts upon human health. Our ultimate goal is to provide scientific guidance for the acquisition of relevant population exposure information for epidemiological studies tackling the short and long term health effects of desert dust. We first describe the source regions and the typical levels of dust particles in regions close and far away from the source areas, along with their size, composition, and bio-aerosol load. We then describe the processes by which dust may become mixed with anthropogenic particulate matter (PM) and/or alter its load in receptor areas. Short term health effects are found during desert dust episodes in different regions of the world, but in a number of cases the results differ when it comes to associate the effects to the bulk PM, the desert dust-PM, or non-desert dust-PM. These differences are likely due to the different monitoring strategies applied in the epidemiological studies, and to the differences on atmospheric and emission (natural and anthropogenic) patterns of desert dust around the world. We finally propose methods to allow the discrimination of health effects by PM fraction during dust outbreaks, and a strategy to implement desert dust alert and monitoring systems for health studies and air quality management.", "keywords": ["Aerosols", "Air Movements", "Epidemiological studies", "Air Pollutants", "Pols mineral -- Tesis doctorals", "Epidemiology", ":Energies [\u00c0rees tem\u00e0tiques de la UPC]", "Atmospheric particulate matter", "Dust", "15. Life on land", "Mineral dust", "01 natural sciences", "Article", "3. Good health", "Environmental sciences", "13. Climate action", "\u00c0rees tem\u00e0tiques de la UPC::Energies", "Air Pollution", "11. Sustainability", "GE1-350", "Desert dust", "Dust control", "Environmental Monitoring", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/2949948697"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environment%20International", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "2949948697", "name": "item", "description": "2949948697", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/2949948697"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-09-01T00:00:00Z"}}, {"id": "10.5281/zenodo.3796727", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-26T16:23:19Z", "type": "Dataset", "title": "SELECTED PHYSICAL AND CHEMICAL PROPERTIES OF SOIL UNDER DIFFERENT AGRICULTURAL LAND-USE TYPES IN ILE-IFE, NIGERIA", "description": "The study examined changes in soil properties under different agricultural land-use types. This is with the view to extending knowledge on the nature of soil properties under long-term land-use practices. Six land-use types were considered; paddock, continuously cropped, secondary forest, teak, oil palm and cacao plantations. Soil strength and saturated hydraulic conductivity were determined at two soil depths (0-15 and 15-30 cm) in-situ. Soil samples were collected to determine particle size distribution, bulk density, aggregate stability, pH, organic carbon, cation exchange capacity, total nitrogen and available phosphorus.", "keywords": ["2. Zero hunger", "Land-use types", " agriculture", " tree crops", " paddock", " secondary forest", " soil properties", "15. Life on land", "6. 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