{"type": "FeatureCollection", "features": [{"id": "10.1007/s004420100656", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:15:07Z", "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.coisb.2021.100379", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:16:25Z", "type": "Journal Article", "created": "2021-09-09", "title": "Approaches for completing metabolic networks through metabolite damage and repair discovery", "description": "Metabolites are prone to damage, either via enzymatic side reactions, which collectively form the underground metabolism, or via spontaneous chemical reactions. The resulting non-canonical metabolites that can be toxic, are mended by dedicated 'metabolite repair enzymes.' Deficiencies in the latter can cause severe disease in humans, whereas inclusion of repair enzymes in metabolically engineered systems can improve the production yield of value-added chemicals. The metabolite damage and repair loops are typically not yet included in metabolic reconstructions and it is likely that many remain to be discovered. Here, we review strategies and associated challenges for unveiling non-canonical metabolites and metabolite repair enzymes, including systematic approaches based on high-resolution mass spectrometry, metabolome-wide side-activity prediction, as well as high-throughput substrate and phenotypic screens.", "keywords": ["0301 basic medicine", "0303 health sciences", "03 medical and health sciences", ": Biochemistry", " biophysics & molecular biology [F05] [Life sciences]", ": Biochimie", " biophysique & biologie mol\u00e9culaire [F05] [Sciences du vivant]", "Article"]}, "links": [{"href": "https://doi.org/10.1016/j.coisb.2021.100379"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Current%20Opinion%20in%20Systems%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.coisb.2021.100379", "name": "item", "description": "10.1016/j.coisb.2021.100379", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.coisb.2021.100379"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-12-01T00:00:00Z"}}, {"id": "10.1016/j.fcr.2014.08.004", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:16:42Z", "type": "Journal Article", "created": "2014-09-16", "title": "Benefits Of Legume\u2013Maize Rotations: Assessing The Impact Of Diversity On The Productivity Of Smallholders In Western Kenya", "description": "Abstract   Agricultural intensification of farming systems in sub-Saharan Africa is a prerequisite to alleviate rural poverty and improve livelihoods. Legumes have shown great potential to enhance system productivity. On-farm experiments were conducted in different agro-ecological zones (AEZ) in Western Kenya to assess the agronomic and economic benefits of promising legumes. In each zone, trials were established in fields of high, medium and low fertility to assess the effect of soil fertility heterogeneity on legume productivity and subsequent maize yield. Common bean, soybean, groundnut, lima bean, lablab, velvet bean, crotalaria, and jackbean were grown in the short rains season, followed by maize in the long rains season. Alongside, continuous maize treatments fertilised at different rates were established. AEZs and soil fertility gradients within these zones greatly affected crop productivity, returns to land and labour of rotations, as well as the relative performance of rotations. Poorer soil fertility and AEZs with lower rainfall gave smaller legume and maize yields and consequently, smaller returns to land and labour. The cultivation of legumes increased maize yields in the subsequent long rains season compared with continuous maize receiving fertiliser at a similar rate, while the increase of maize after green manure legumes was stronger than that after grain legumes. Maize yield responded strongly to increasing amounts of N applied as legume residues with diminishing returns to legume-N application rates above 100\u00a0kg\u00a0N\u00a0ha\u22121. In the low potential zones, factors other than improved N availability likely also stimulated maize yield. Rotations with grain legumes generally provided better returns than those with green manures. Intercropping bean with maize in the long rains season provided an additional bean yield that did not come at the expense of maize yield and improved returns to land and labour, but more so in the high potential zones. The results demonstrate the strong impact of biophysical diversity on the productivity of the legumes and suggest the need for careful targeting of legume technologies to the different biophysical conditions.", "keywords": ["2. Zero hunger", "semiarid kenya", "soil fertility", "legumes", "sustainable intensification", "cattle manure", "1. No poverty", "04 agricultural and veterinary sciences", "15. Life on land", "maize", "exploring diversity", "nitrogen", "economic analysis", "soybean glycine-max", "soil fertility management", "biophysics", "on-farm productivity", "0401 agriculture", " forestry", " and fisheries", "farming systems", "crop-livestock systems", "degraded soils"]}, "links": [{"href": "https://doi.org/10.1016/j.fcr.2014.08.004"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Field%20Crops%20Research", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.fcr.2014.08.004", "name": "item", "description": "10.1016/j.fcr.2014.08.004", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.fcr.2014.08.004"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2014-11-01T00:00:00Z"}}, {"id": "10.1038/s41467-019-08348-1", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:18:22Z", "type": "Journal Article", "created": "2019-02-14", "title": "Decadal biomass increment in early secondary succession woody ecosystems is increased by CO2 enrichment", "description": "Abstract<p>Increasing atmospheric CO2 stimulates photosynthesis which can increase net primary production (NPP), but at longer timescales may not necessarily increase plant biomass. Here we analyse the four decade-long CO2-enrichment experiments in woody ecosystems that measured total NPP and biomass. CO2 enrichment increased biomass increment by 1.05\uffe2\uff80\uff89\uffc2\uffb1\uffe2\uff80\uff890.26\uffe2\uff80\uff89kg\uffe2\uff80\uff89C\uffe2\uff80\uff89m\uffe2\uff88\uff922 over a full decade, a 29.1\uffe2\uff80\uff89\uffc2\uffb1\uffe2\uff80\uff8911.7% stimulation of biomass gain in these early-secondary-succession temperate ecosystems. This response is predictable by combining the CO2 response of NPP (0.16\uffe2\uff80\uff89\uffc2\uffb1\uffe2\uff80\uff890.03\uffe2\uff80\uff89kg\uffe2\uff80\uff89C\uffe2\uff80\uff89m\uffe2\uff88\uff922\uffe2\uff80\uff89y\uffe2\uff88\uff921) and the CO2-independent, linear slope between biomass increment and cumulative NPP (0.55\uffe2\uff80\uff89\uffc2\uffb1\uffe2\uff80\uff890.17). An ensemble of terrestrial ecosystem models fail to predict both terms correctly. Allocation to wood was a driver of across-site, and across-model, response variability and together with CO2-independence of biomass retention highlights the value of understanding drivers of wood allocation under ambient conditions to\uffc2\uffa0correctly interpret\uffc2\uffa0and predict CO2 responses.</p>", "keywords": ["[SDE] Environmental Sciences", "0106 biological sciences", "0301 basic medicine", "TREE MORTALITY", "550", "Climate", "Plant Biology", "Biochemistry", "01 natural sciences", "Trees", "atmospheric carbon dioxide", "ddc:550", "Biomass", "Photosynthesis", "Ecology", "Q", "FOREST PRODUCTIVITY", "Forestry", "Biological Sciences", "woody", "decadal biomass", "Wood", "[SDE]Environmental Sciences", "GROWTH", "ecosystems", "CARBON ALLOCATION", "570", "Science", "Biophysics", "333", "SWEETGUM PLANTATION", "Article", "03 medical and health sciences", "XXXXXX - Unknown", "forest ecology", "plant biomass", "Biochemistry", " Biophysics", " and Structural Biology", "Ecosystem", "photosynthesis", "Carbon Dioxide", "15. Life on land", "[SDE.BE] Environmental Sciences/Biodiversity and Ecology", "NITROGEN", "CLIMATE", "13. Climate action", "and Structural Biology", "[SDE.BE]Environmental Sciences/Biodiversity and Ecology", "ELEVATED CO2", "SOIL CARBON", "RESPONSES"]}, "links": [{"href": "https://www.nature.com/articles/s41467-019-08348-1.pdf"}, {"href": "https://arrow.tudublin.ie/context/scschbioart/article/1214/viewcontent/nature.pdf"}, {"href": "https://escholarship.org/content/qt5m5806sh/qt5m5806sh.pdf"}, {"href": "https://doi.org/10.1038/s41467-019-08348-1"}, {"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/s41467-019-08348-1", "name": "item", "description": "10.1038/s41467-019-08348-1", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1038/s41467-019-08348-1"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-02-14T00:00:00Z"}}, {"id": "10.1073/pnas.2201072119", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:18:46Z", "type": "Journal Article", "created": "2022-07-18", "title": "Ethylene inhibits rice root elongation in compacted soil via ABA- and auxin-mediated mechanisms", "description": "<p>             Soil compaction represents a major agronomic challenge, inhibiting root elongation and impacting crop yields. Roots use ethylene to sense soil compaction as the restricted air space causes this gaseous signal to accumulate around root tips. Ethylene inhibits root elongation and promotes radial expansion in compacted soil, but its mechanistic basis remains unclear. Here, we report that ethylene promotes abscisic acid (ABA) biosynthesis and cortical cell radial expansion. Rice mutants of ABA biosynthetic genes had attenuated cortical cell radial expansion in compacted soil, leading to better penetration. Soil compaction-induced ethylene also up-regulates the auxin biosynthesis gene             OsYUC8             . Mutants lacking OsYUC8 are better able to penetrate compacted soil. The auxin influx transporter OsAUX1 is also required to mobilize auxin from the root tip to the elongation zone during a root compaction response. Moreover,             osaux1             mutants penetrate compacted soil better than the wild-type roots and do not exhibit cortical cell radial expansion. We conclude that ethylene uses auxin and ABA as downstream signals to modify rice root cell elongation and radial expansion, causing root tips to swell and reducing their ability to penetrate compacted soil.           </p", "keywords": ["roots", "0301 basic medicine", "570", "Cell biology", "Arabidopsis", "Biophysics", "Plant Science", "Plant Roots", "Biochemistry", "Gene", "Catalysis", "Mixed Function Oxygenases", "Molecular Mechanisms of Plant Development and Regulation", "soil compaction", "Agricultural and Biological Sciences", "Soil", "Abscisic acid", "Ethylene", "03 medical and health sciences", "aba", "ethylene", "Auxin", "Elongation", "Biology", "Plant Proteins", "580", "2. Zero hunger", "0303 health sciences", "Multidisciplinary", "Indoleacetic Acids", "Mutant", "Life Sciences", "Oryza", "Plant Nutrient Uptake and Signaling Pathways", "Biological Sciences", "Ethylenes", "15. Life on land", "Materials science", "Root Aeration", "Chemistry", "ABA", "Plant Responses to Flooding Stress", "Ultimate tensile strength", "Mutation", "Metallurgy", "auxin", "Abscisic Acid"]}, "links": [{"href": "https://pnas.org/doi/pdf/10.1073/pnas.2201072119"}, {"href": "https://doi.org/10.1073/pnas.2201072119"}, {"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.2201072119", "name": "item", "description": "10.1073/pnas.2201072119", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1073/pnas.2201072119"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-07-18T00:00:00Z"}}, {"id": "10.1111/nph.16312", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:19:50Z", "type": "Journal Article", "created": "2019-11-06", "title": "The helical motions of roots are linked to avoidance of particle forces in soil", "description": "Summary<p><p>Limitation to root growth results from forces required to overcome soil resistance to deformation. The variations in individual particle forces affects root development and often deflects the growth trajectory.</p><p>We have developed transparent soil and optical projection tomography microscopy systems where measurements of growth trajectory and particle forces can be acquired in a granular medium at a range of confining pressures. We developed image\uffe2\uff80\uff90processing pipelines to analyse patterns in root trajectories and a stochastic\uffe2\uff80\uff90mechanical theory to establish how root deflections relate to particle forces and thickening of the root.</p><p>Root thickening compensates for the increase in mean particle forces but does not prevent deflections from 5% of most extreme individual particle forces causing root deflection. The magnitude of deflections increases with pressure but they assemble into helices of conserved wavelength in response linked to gravitropism.</p><p>The study reveals mechanisms for the understanding of root growth in mechanically impeding soil conditions and provides insights relevant to breeding of drought\uffe2\uff80\uff90resistant crops.</p></p", "keywords": ["name=Physiology", "0106 biological sciences", "0301 basic medicine", "/dk/atira/pure/subjectarea/asjc/1300/1314", "570", "Mechanical stress", "transparent soil", "deflection", "/dk/atira/pure/subjectarea/asjc/1100/1110", "Biophysics", "Plant Roots", "01 natural sciences", "[SDV.BV.BOT] Life Sciences [q-bio]/Vegetal Biology/Botanics", "Transparent Soil", "Gravitropism", "Soil", "03 medical and health sciences", "biophysics", "Transparent soil", "2. Zero hunger", "mechanical stress", "[PHYS.MECA.BIOM] Physics [physics]/Mechanics [physics]/Biomechanics [physics.med-ph]", "15. Life on land", "root", "Droughts", "Plant Breeding", "granular", "Root", "Deflection", "name=Plant Science"]}, "links": [{"href": "https://nph.onlinelibrary.wiley.com/doi/pdf/10.1111/nph.16312"}, {"href": "https://doi.org/10.1111/nph.16312"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/New%20Phytologist", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/nph.16312", "name": "item", "description": "10.1111/nph.16312", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/nph.16312"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-12-12T00:00:00Z"}}, {"id": "10.1371/journal.pone.0069357", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:20:14Z", "type": "Journal Article", "created": "2013-07-19", "title": "Soil Carbon Stocks Decrease Following Conversion Of Secondary Forests To Rubber (Hevea Brasiliensis) Plantations", "description": "Forest-to-rubber plantation conversion is an important land-use change in the tropical region, for which the impacts on soil carbon stocks have hardly been studied. In montane mainland southeast Asia, monoculture rubber plantations cover 1.5 million ha and the conversion from secondary forests to rubber plantations is predicted to cause a fourfold expansion by 2050. Our study, conducted in southern Yunnan province, China, aimed to quantify the changes in soil carbon stocks following the conversion from secondary forests to rubber plantations. We sampled 11 rubber plantations ranging in age from 5 to 46 years and seven secondary forest plots using a space-for-time substitution approach. We found that forest-to-rubber plantation conversion resulted in losses of soil carbon stocks by an average of 37.4\u00b14.7 (SE) Mg C ha(-1) in the entire 1.2-m depth over a time period of 46 years, which was equal to 19.3\u00b12.7% of the initial soil carbon stocks in the secondary forests. This decline in soil carbon stocks was much larger than differences between published aboveground carbon stocks of rubber plantations and secondary forests, which range from a loss of 18 Mg C ha(-1) to an increase of 8 Mg C ha(-1). In the topsoil, carbon stocks declined exponentially with years since deforestation and reached a steady state at around 20 years. Although the IPCC tier 1 method assumes that soil carbon changes from forest-to-rubber plantation conversions are zero, our findings show that they need to be included to avoid errors in estimating overall ecosystem carbon fluxes.", "keywords": ["2. Zero hunger", "China", "Rubber; Forests; Trees; Edaphology; Clay mineralogy; Biophysics; Land use; Bamboo", "Science", "Q", "R", "Agriculture", "04 agricultural and veterinary sciences", "Environment", "15. Life on land", "Carbon", "Trees", "Soil", "13. Climate action", "Medicine", "Hevea", "0401 agriculture", " forestry", " and fisheries", "Ecosystem", "Research Article"]}, "links": [{"href": "https://doi.org/10.1371/journal.pone.0069357"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PLoS%20ONE", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1371/journal.pone.0069357", "name": "item", "description": "10.1371/journal.pone.0069357", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1371/journal.pone.0069357"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-07-19T00:00:00Z"}}, {"id": "10.6084/m9.figshare.5555092", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:25:21Z", "type": "Journal Article", "created": "2017-10-31", "title": "Supplementary Materials from Measurement of micro-scale soil deformation around roots using four-dimensional synchrotron tomography and image correlation", "description": "Supplementary Materials", "keywords": ["110601 Biomechanics", "90301 Biomaterials", "Biophysics", "FOS: Health sciences", "FOS: Medical engineering"], "contacts": [{"organization": "S. D. Keyes, L. Cooper, S. Duncan, N. Koebernick, D. M. McKay Fletcher, C. P. Scotson, A. V. Van Veelen, I. Sinclair, T. Roose,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.6084/m9.figshare.5555092"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Royal%20Society%20Interface", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.6084/m9.figshare.5555092", "name": "item", "description": "10.6084/m9.figshare.5555092", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.6084/m9.figshare.5555092"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-01-01T00:00:00Z"}}, {"id": "10.6084/m9.figshare.5555092.v1", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:25:21Z", "type": "Journal Article", "created": "2017-10-31", "title": "Supplementary Materials from Measurement of micro-scale soil deformation around roots using four-dimensional synchrotron tomography and image correlation", "description": "Supplementary Materials", "keywords": ["110601 Biomechanics", "90301 Biomaterials", "Biophysics", "FOS: Health sciences", "FOS: Medical engineering"], "contacts": [{"organization": "S. D. Keyes, L. Cooper, S. Duncan, N. Koebernick, D. M. McKay Fletcher, C. P. Scotson, A. V. Van Veelen, I. Sinclair, T. Roose,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.6084/m9.figshare.5555092.v1"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Royal%20Society%20Interface", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.6084/m9.figshare.5555092.v1", "name": "item", "description": "10.6084/m9.figshare.5555092.v1", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.6084/m9.figshare.5555092.v1"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-01-01T00:00:00Z"}}, {"id": "10.6084/m9.figshare.c.3917914.v1", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:25:25Z", "type": "Journal Article", "created": "2017-10-31", "title": "Supplementary material from \"Measurement of micro-scale soil deformation around roots using four-dimensional synchrotron tomography and image correlation\"", "description": "Supplementary Materials", "keywords": ["110601 Biomechanics", "90301 Biomaterials", "Biophysics", "FOS: Health sciences", "FOS: Medical engineering"], "contacts": [{"organization": "S. D. Keyes, L. Cooper, S. Duncan, N. Koebernick, D. M. McKay Fletcher, C. P. Scotson, A. V. Van Veelen, I. Sinclair, T. Roose,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.6084/m9.figshare.c.3917914.v1"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Royal%20Society%20Interface", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.6084/m9.figshare.c.3917914.v1", "name": "item", "description": "10.6084/m9.figshare.c.3917914.v1", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.6084/m9.figshare.c.3917914.v1"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-01-01T00:00:00Z"}}, {"id": "11104/0341036", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:25:56Z", "type": "Journal Article", "created": "2022-07-18", "title": "Ethylene inhibits rice root elongation in compacted soil via ABA- and auxin-mediated mechanisms", "description": "<p>             Soil compaction represents a major agronomic challenge, inhibiting root elongation and impacting crop yields. Roots use ethylene to sense soil compaction as the restricted air space causes this gaseous signal to accumulate around root tips. Ethylene inhibits root elongation and promotes radial expansion in compacted soil, but its mechanistic basis remains unclear. Here, we report that ethylene promotes abscisic acid (ABA) biosynthesis and cortical cell radial expansion. Rice mutants of ABA biosynthetic genes had attenuated cortical cell radial expansion in compacted soil, leading to better penetration. Soil compaction-induced ethylene also up-regulates the auxin biosynthesis gene             OsYUC8             . Mutants lacking OsYUC8 are better able to penetrate compacted soil. The auxin influx transporter OsAUX1 is also required to mobilize auxin from the root tip to the elongation zone during a root compaction response. Moreover,             osaux1             mutants penetrate compacted soil better than the wild-type roots and do not exhibit cortical cell radial expansion. We conclude that ethylene uses auxin and ABA as downstream signals to modify rice root cell elongation and radial expansion, causing root tips to swell and reducing their ability to penetrate compacted soil.           </p", "keywords": ["roots", "0301 basic medicine", "570", "Cell biology", "Arabidopsis", "Biophysics", "Plant Science", "Plant Roots", "Biochemistry", "Gene", "Catalysis", "Mixed Function Oxygenases", "Molecular Mechanisms of Plant Development and Regulation", "soil compaction", "Agricultural and Biological Sciences", "Soil", "Abscisic acid", "Ethylene", "03 medical and health sciences", "aba", "ethylene", "Auxin", "Elongation", "Biology", "Plant Proteins", "580", "2. Zero hunger", "0303 health sciences", "Multidisciplinary", "Indoleacetic Acids", "Mutant", "Life Sciences", "Oryza", "Plant Nutrient Uptake and Signaling Pathways", "Biological Sciences", "Ethylenes", "15. Life on land", "Materials science", "Root Aeration", "Chemistry", "ABA", "Plant Responses to Flooding Stress", "Ultimate tensile strength", "Mutation", "Metallurgy", "auxin", "Abscisic Acid"]}, "links": [{"href": "https://pnas.org/doi/pdf/10.1073/pnas.2201072119"}, {"href": "https://doi.org/11104/0341036"}, {"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": "11104/0341036", "name": "item", "description": "11104/0341036", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/11104/0341036"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-07-18T00:00:00Z"}}, {"id": "2988521966", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:27:03Z", "type": "Journal Article", "created": "2019-11-06", "title": "The helical motions of roots are linked to avoidance of particle forces in soil", "description": "Summary<p><p>Limitation to root growth results from forces required to overcome soil resistance to deformation. The variations in individual particle forces affects root development and often deflects the growth trajectory.</p><p>We have developed transparent soil and optical projection tomography microscopy systems where measurements of growth trajectory and particle forces can be acquired in a granular medium at a range of confining pressures. We developed image\uffe2\uff80\uff90processing pipelines to analyse patterns in root trajectories and a stochastic\uffe2\uff80\uff90mechanical theory to establish how root deflections relate to particle forces and thickening of the root.</p><p>Root thickening compensates for the increase in mean particle forces but does not prevent deflections from 5% of most extreme individual particle forces causing root deflection. The magnitude of deflections increases with pressure but they assemble into helices of conserved wavelength in response linked to gravitropism.</p><p>The study reveals mechanisms for the understanding of root growth in mechanically impeding soil conditions and provides insights relevant to breeding of drought\uffe2\uff80\uff90resistant crops.</p></p", "keywords": ["name=Physiology", "0106 biological sciences", "0301 basic medicine", "/dk/atira/pure/subjectarea/asjc/1300/1314", "570", "Mechanical stress", "transparent soil", "deflection", "/dk/atira/pure/subjectarea/asjc/1100/1110", "Biophysics", "Plant Roots", "01 natural sciences", "[SDV.BV.BOT] Life Sciences [q-bio]/Vegetal Biology/Botanics", "Transparent Soil", "Gravitropism", "Soil", "03 medical and health sciences", "biophysics", "Transparent soil", "2. Zero hunger", "mechanical stress", "[PHYS.MECA.BIOM] Physics [physics]/Mechanics [physics]/Biomechanics [physics.med-ph]", "15. Life on land", "root", "Droughts", "Plant Breeding", "granular", "Root", "Deflection", "name=Plant Science"]}, "links": [{"href": "https://nph.onlinelibrary.wiley.com/doi/pdf/10.1111/nph.16312"}, {"href": "https://doi.org/2988521966"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/New%20Phytologist", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "2988521966", "name": "item", "description": "2988521966", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/2988521966"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-12-12T00:00:00Z"}}, {"id": "31693763", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:27:22Z", "type": "Journal Article", "created": "2019-11-06", "title": "The helical motions of roots are linked to avoidance of particle forces in soil", "description": "Summary<p><p>Limitation to root growth results from forces required to overcome soil resistance to deformation. The variations in individual particle forces affects root development and often deflects the growth trajectory.</p><p>We have developed transparent soil and optical projection tomography microscopy systems where measurements of growth trajectory and particle forces can be acquired in a granular medium at a range of confining pressures. We developed image\uffe2\uff80\uff90processing pipelines to analyse patterns in root trajectories and a stochastic\uffe2\uff80\uff90mechanical theory to establish how root deflections relate to particle forces and thickening of the root.</p><p>Root thickening compensates for the increase in mean particle forces but does not prevent deflections from 5% of most extreme individual particle forces causing root deflection. The magnitude of deflections increases with pressure but they assemble into helices of conserved wavelength in response linked to gravitropism.</p><p>The study reveals mechanisms for the understanding of root growth in mechanically impeding soil conditions and provides insights relevant to breeding of drought\uffe2\uff80\uff90resistant crops.</p></p", "keywords": ["name=Physiology", "0106 biological sciences", "0301 basic medicine", "/dk/atira/pure/subjectarea/asjc/1300/1314", "570", "Mechanical stress", "transparent soil", "deflection", "/dk/atira/pure/subjectarea/asjc/1100/1110", "Biophysics", "Plant Roots", "01 natural sciences", "[SDV.BV.BOT] Life Sciences [q-bio]/Vegetal Biology/Botanics", "Transparent Soil", "Gravitropism", "Soil", "03 medical and health sciences", "biophysics", "Transparent soil", "2. Zero hunger", "mechanical stress", "[PHYS.MECA.BIOM] Physics [physics]/Mechanics [physics]/Biomechanics [physics.med-ph]", "15. Life on land", "root", "Droughts", "Plant Breeding", "granular", "Root", "Deflection", "name=Plant Science"]}, "links": [{"href": "https://nph.onlinelibrary.wiley.com/doi/pdf/10.1111/nph.16312"}, {"href": "https://doi.org/31693763"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/New%20Phytologist", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "31693763", "name": "item", "description": "31693763", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/31693763"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-12-12T00:00:00Z"}}], "links": [{"rel": "self", "type": "application/geo+json", "title": "This document as GeoJSON", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=Biophysics&f=json", "hreflang": "en-US"}, {"rel": "alternate", "type": "text/html", "title": "This document as HTML", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=Biophysics&f=html", "hreflang": "en-US"}, {"rel": "collection", "type": "application/json", "title": "Collection URL", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main", "hreflang": "en-US"}, {"type": "application/geo+json", "rel": "first", "title": "items (first)", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=Biophysics&", "hreflang": "en-US"}, {"rel": "last", "type": "application/geo+json", "title": "items (last)", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=Biophysics&offset=13", "hreflang": "en-US"}], "numberMatched": 13, "numberReturned": 13, "distributedFeatures": [], "timeStamp": "2026-06-23T22:40:18.596725Z"}