{"type": "FeatureCollection", "features": [{"id": "10.1007/s10021-015-9855-z", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:14:59Z", "type": "Journal Article", "created": "2015-03-09", "title": "Defoliation And Soil Compaction Jointly Drive Large-Herbivore Grazing Effects On Plants And Soil Arthropods On Clay Soil", "description": "In addition to the well-studied impacts of defecation and defoliation, large herbivores also affect plant and arthropod communities through trampling, and the associated soil compaction. Soil compaction can be expected to be particularly important on wet, fine-textured soils. Therefore, we established a full factorial experiment of defoliation (monthly mowing) and soil compaction (using a rammer, annually) on a clay-rich salt marsh at the Dutch coast, aiming to disentangle the importance of these two factors. Additionally, we compared the effects on soil physical properties, plants, and arthropods to those at a nearby cattle-grazed marsh under dry and under waterlogged conditions. Soil physical conditions of the compacted plots were similar to the conditions at cattle-grazed plots, showing decreased soil aeration and increased waterlogging. Soil salinity was doubled by defoliation and quadrupled by combined defoliation and compaction. Cover of the dominant tall grass Elytrigia atherica was decreased by 80% in the defoliated plots, but cover of halophytes only increased under combined defoliation and compaction. Effects on soil micro-arthropods were most severe under waterlogging, showing a fourfold decrease in abundance and a smaller mean body size under compaction. Although the combined treatment of defoliation and trampling indeed proved most similar to the grazed marsh, large discrepancies remained for both plant and soil fauna communities, presumably because of colonization time lags. We conclude that soil compaction and defoliation differently affect plant and arthropod communities in grazed ecosystems, and that the magnitude of their effects depends on herbivore density, productivity, and soil physical properties.", "keywords": ["COLLEMBOLA", "0106 biological sciences", "570", "wadden sea", "GRASSLAND", "growth", "cow", "DIVERSITY", "01 natural sciences", "630", "diversity", "Aranaea", "simulated grazing", "SALT-MARSH", "MOUNTAIN PASTURES", "MANAGEMENT", "Environmental Chemistry", "Acari", "NITROGEN MINERALIZATION", "nitrogen mineralization", "Ecology", " Evolution", " Behavior and Systematics", "2. Zero hunger", "macro-detritivores", "mountain pastures", "Ecology", "COW", "national", "collembola", "WADDEN SEA", "15. Life on land", "Coleoptera", "salt-marsh", "Collembola", "GROWTH", "grassland", "management"]}, "links": [{"href": "https://ueaeprints.uea.ac.uk/id/eprint/72900/1/Published_Version.PDF"}, {"href": "https://doi.org/10.1007/s10021-015-9855-z"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecosystems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s10021-015-9855-z", "name": "item", "description": "10.1007/s10021-015-9855-z", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s10021-015-9855-z"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2015-03-10T00:00:00Z"}}, {"id": "10.1007/s10021-008-9219-z", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:14:57Z", "type": "Journal Article", "created": "2008-12-16", "title": "Increased Litter Build Up And Soil Organic Matter Stabilization In A Poplar Plantation After 6 Years Of Atmospheric Co2 Enrichment (Face): Final Results Of Pop-Euroface Compared To Other Forest Face Experiments", "description": "Free air CO2 enrichment (FACE) experiments in aggrading temperate forests and plantations have been initiated to test whether temperate forest ecosystems act as sinks for anthropogenic emissions of CO2. These FACE experiments have demonstrated increases in net primary production and carbon (C) storage in forest vegetation due to increased atmospheric CO2 concentrations. However, the fate of this extra biomass in the forest floor or mineral soil is less clear. After 6\u00a0years of FACE treatment in a short-rotation poplar plantation, we observed an additional sink of 32\u00a0g C\u00a0m\u22122\u00a0y\u22121 in the forest floor. Mineral soil C content increased equally under ambient and increased CO2 treatment during the 6-year experiment. However, during the first half of the experiment the increase in soil C was suppressed under FACE due to a priming effect, that is, the additional labile C increased the mineralization of older SOM, whereas during the second half of the experiment the increase in soil C was larger under FACE. An additional sink of 54\u00a0g C\u00a0m\u22122\u00a0y\u22121 in the top 10\u00a0cm of the mineral soil was created under FACE during the second half of the experiment. Although, this FACE effect was not significant due to a combination of soil spatial variability and the low number of replicates that are inherent to the present generation of forest stand FACE experiments. Physical fractionation by wet sieving revealed an increase in the C and nitrogen (N) content of macro-aggregates due to FACE. Further fractionation by density showed that FACE increased C and N contents of the light iPOM and mineral associated intra-macro-aggregate fractions. Isolation of micro-aggregates from macro-aggregates and subsequent fractionation by density revealed that FACE increased C and N contents of the light iPOM, C content of the fine iPOM and C and N contents of the mineral associated intra-micro-aggregate fractions. From this we infer that the amount of stabilized C and N increased under FACE treatment. We compared our data with published results of other forest FACE experiments and infer that the type of vegetation and soil base saturation, as a proxy for bioturbation, are important factors related to the size of the additional C sinks of the forest floor\u2013soil system under FACE.", "keywords": ["tropospheric o-3", "elevated co2", "n-fertilization", "Ecology", "mineral soil", "terrestrial ecosystems", "deciduous forest", "04 agricultural and veterinary sciences", "carbon storage", "cultivated soils", "15. Life on land", "13. Climate action", "biomass production", "Environmental Chemistry", "0401 agriculture", " forestry", " and fisheries", "nitrogen-use efficiency", "Ecology", " Evolution", " Behavior and Systematics"]}, "links": [{"href": "https://doi.org/10.1007/s10021-008-9219-z"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecosystems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s10021-008-9219-z", "name": "item", "description": "10.1007/s10021-008-9219-z", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s10021-008-9219-z"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2008-12-17T00:00:00Z"}}, {"id": "10.1007/s00248-018-1305-y", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:14:44Z", "type": "Journal Article", "created": "2018-12-08", "title": "Soil Type and Cyanobacteria Species Influence the Macromolecular and Chemical Characteristics of the Polysaccharidic Matrix in Induced Biocrusts", "description": "Inoculation of soils with cyanobacteria is proposed as a sustainable biotechnological technique for restoration of degraded areas in drylands due to the important role that cyanobacteria and their exopolysaccharides (EPS) play in the environment. So far, few studies have analyzed the macromolecular and chemical characteristics of the polysaccharidic matrix in induced cyanobacterial biocrusts and the scarce existing studies have mainly focused on sandy soil textures. However, the characteristics of the cyanobacterial polysaccharidic matrix may greatly depend on soil type. The objective of this study was to examine the macromolecular distribution and monosaccharidic composition of the polysaccharidic matrix induced by inoculation of two cyanobacterial species common in arid environments, Phormidium ambiguum (non N-fixing) and Scytonema javanicum (N-fixing) in different soil types. S. javanicum promoted a higher release in the soil of the more soluble and less condensed EPS fraction (i.e., the loosely bound EPS fraction, LB-EPS), while P. ambiguum showed a higher release of the less soluble and more condensed EPS fraction (i.e., the tightly bound EPS fraction, TB-EPS). LB-EPSs were mainly composed of low MW molecules (<\u200950\u00a0kDa), while TB-EPSs were mainly composed of high MW molecules (1100-2000\u00a0kDa). The two EPS fractions showed a complex monosaccharidic composition (from 11 to 12 different types of monosaccharides), with glucose as the most abundant monosaccharide, in particular in the poorer soils characterized by lower organic C contents. In more C-rich soils, high abundances of galactose, mannose, and xylose were also found. Low abundance of uronic acids and hydrophobic monosaccharides, such as fucose and rhamnose, was found in the EPS extracted from the inoculated soils. Our results point to the influence of soil type on the macromolecular distribution and monosaccharide composition of the polysaccharidic matrix in induced biocrusts, which is likely to affect biocrust development and their role in soil structure and nutrient cycling in restored dryland soils.", "keywords": ["0301 basic medicine", "2. Zero hunger", "0303 health sciences", "Cyanobacteria inoculation", "Tightly bound EPS", "Polysaccharides", " Bacterial", "Biological soil crust; Cyanobacteria inoculation; Loosely bound EPS; Molecular weight; Monosaccharide composition; Tightly bound EPS; Ecology; Evolution; Behavior and Systematics; Ecology; Soil Science", "Biological soil crust", "Monosaccharide composition", "15. Life on land", "Cyanobacteria", "Molecular weight", "Biological soil crust; Cyanobacteria inoculation; Loosely bound EPS; Molecular weight; Monosaccharide composition; Tightly bound EPS; Ecology", " Evolution", " Behavior and Systematics; Ecology; Soil Science", "Soil", "03 medical and health sciences", "13. Climate action", "Loosely bound EPS", "Desert Climate", "Soil Microbiology"]}, "links": [{"href": "https://iris.unive.it/bitstream/10278/5089943/1/s00248-018-1305-y.pdf"}, {"href": "http://link.springer.com/content/pdf/10.1007/s00248-018-1305-y.pdf"}, {"href": "https://doi.org/10.1007/s00248-018-1305-y"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microbial%20Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00248-018-1305-y", "name": "item", "description": "10.1007/s00248-018-1305-y", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00248-018-1305-y"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-12-08T00:00:00Z"}}, {"id": "10.1007/s00442-009-1516-5", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:14:54Z", "type": "Journal Article", "created": "2009-12-04", "title": "Combined Effects Of Precipitation And Nitrogen Deposition On Native And Invasive Winter Annual Production In California Deserts", "description": "Primary production in deserts is limited by soil moisture and N availability, and thus is likely to be influenced by both anthropogenic N deposition and precipitation regimes altered as a consequence of climate change. Invasive annual grasses are particularly responsive to increases in N and water availabilities, which may result in competition with native forb communities. Additionally, conditions favoring increased invasive grass production in arid and semi-arid regions can increase fire risk, negatively impacting woody vegetation that is not adapted to fire. We conducted a seeded garden experiment and a 5-year field fertilization experiment to investigate how winter annual production is altered by increasing N supply under a range of water availabilities. The greatest production of invasive grasses and native forbs in the garden experiment occurred under the highest soil N (inorganic N after fertilization = 2.99 g m(-2)) and highest watering regime, indicating these species are limited by both water and N. A classification and regression tree (CART) analysis on the multi-year field fertilization study showed that winter annual biomass was primarily limited by November-December precipitation. Biomass exceeded the threshold capable of carrying fire when inorganic soil N availability was at least 3.2 g m(-2) in pi\u00f1on-juniper woodland. Due to water limitation in creosote bush scrub, biomass exceeded the fire threshold only under very wet conditions regardless of soil N status. The CART analyses also revealed that percent cover of invasive grasses and native forbs is primarily dependent on the timing and amount of precipitation and secondarily dependent on soil N and site-specific characteristics. In total, our results indicate that areas of high N deposition will be susceptible to grass invasion, particularly in wet years, potentially reducing native species cover and increasing the risk of fire.", "keywords": ["0106 biological sciences", "Time Factors", "Schismus", "Non-native", "Bromus", "Nitrogen", "Climate Change", "Rain", "Plant Development", "Poaceae", "01 natural sciences", "California", "Fires", "Soil", "Climate change", "Biomass", "Ecology", " Evolution", " Behavior and Systematics", "0105 earth and related environmental sciences", "2. Zero hunger", "Ecology", "Geography", "Ecosystem ecology - Original paper", "Plant Sciences", "Life Sciences", "Water", "Agriculture", "Plants", "15. Life on land", "Fuel load", "6. Clean water", "13. Climate action", "Fertilization", "Regression Analysis", "Seasons", "Desert Climate"], "contacts": [{"organization": "Rao, Leela E., Allen, Edith B.,", "roles": ["creator"]}]}, "links": [{"href": "https://escholarship.org/content/qt8qv4f2kn/qt8qv4f2kn.pdf"}, {"href": "https://doi.org/10.1007/s00442-009-1516-5"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Oecologia", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00442-009-1516-5", "name": "item", "description": "10.1007/s00442-009-1516-5", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00442-009-1516-5"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2009-12-05T00:00:00Z"}}, {"id": "10.1007/s00442-011-2133-7", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:14:54Z", "type": "Journal Article", "created": "2011-10-04", "title": "Soil Warming Alters Nitrogen Cycling In A New England Forest: Implications For Ecosystem Function And Structure", "description": "Global climate change is expected to affect terrestrial ecosystems in a variety of ways. Some of the more well-studied effects include the biogeochemical feedbacks to the climate system that can either increase or decrease the atmospheric load of greenhouse gases such as carbon dioxide and nitrous oxide. Less well-studied are the effects of climate change on the linkages between soil and plant processes. Here, we report the effects of soil warming on these linkages observed in a large field manipulation of a deciduous forest in southern New England, USA, where soil was continuously warmed 5\u00b0C above ambient for 7 years. Over this period, we have observed significant changes to the nitrogen cycle that have the potential to affect tree species composition in the long term. Since the start of the experiment, we have documented a 45% average annual increase in net nitrogen mineralization and a three-fold increase in nitrification such that in years 5 through 7, 25% of the nitrogen mineralized is then nitrified. The warming-induced increase of available nitrogen resulted in increases in the foliar nitrogen content and the relative growth rate of trees in the warmed area. Acer rubrum (red maple) trees have responded the most after 7 years of warming, with the greatest increases in both foliar nitrogen content and relative growth rates. Our study suggests that considering species-specific responses to increases in nitrogen availability and changes in nitrogen form is important in predicting future forest composition and feedbacks to the climate system.", "keywords": ["Ecosystem ecology - Original Paper", "0106 biological sciences", "550", "Nitrogen", "Climate Change", "Population Dynamics", "Acer", "04 agricultural and veterinary sciences", "Nitrogen Cycle", "15. Life on land", "Nitrate Reductase", "01 natural sciences", "Trees", "Soil", "Species Specificity", "New England", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "Ecology", " Evolution", " Behavior and Systematics", "Ecosystem"]}, "links": [{"href": "https://doi.org/10.1007/s00442-011-2133-7"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Oecologia", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00442-011-2133-7", "name": "item", "description": "10.1007/s00442-011-2133-7", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00442-011-2133-7"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2011-10-05T00:00:00Z"}}, {"id": "10.1007/s00442-012-2360-6", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:14:54Z", "type": "Journal Article", "created": "2012-05-21", "title": "Consequences Of Exclusion Of Precipitation On Microorganisms And Microbial Consumers In Montane Tropical Rainforests", "description": "The structure and functioning of decomposer systems heavily relies on soil moisture. However, this has been primarily studied in temperate ecosystems; little is known about how soil moisture affects the microfaunal food web in tropical regions. This lack of knowledge is surprising, since the microfaunal food web controls major ecosystem processes. To evaluate the role of precipitation in the structure of soil food web components (i.e., microorganisms and testate amoebae), we excluded water input by rain in montane rainforests at different altitudes in Ecuador. Rain exclusion strongly reduced microbial biomass and respiration by about 50\u00a0%, and fungal biomass by 23\u00a0%. In testate amoebae, rain exclusion decreased the density of live cells by 91\u00a0% and caused a shift in species composition at each of the altitudes studied, with ergosterol concentrations, microbial biomass, and water content explaining 25\u00a0% of the variation in species data. The results document that reduced precipitation negatively affects soil microorganisms, but that the response of testate amoebae markedly exceeds that of bacteria and fungi. This suggests that, in addition to food, low precipitation directly affects the community structure of testate amoebae, with the effect being more pronounced at lower altitudes. Overall, the results show that microorganisms and testate amoebae rapidly respond to a reduction in precipitation, with testate amoebae-representatives of higher trophic levels-being more sensitive. The results imply that precipitation and soil moisture in tropical rainforests are the main factors regulating decomposition and nutrient turnover.", "keywords": ["2. Zero hunger", "0106 biological sciences", "Tropical Climate", "Food Chain", "Rain", "Water", "15. Life on land", "01 natural sciences", "Trees", "Soil", "13. Climate action", "Community ecology - Original research", "Biomass", "Ecuador", "Amoeba", "Ecology", " Evolution", " Behavior and Systematics", "Soil Microbiology"]}, "links": [{"href": "https://doi.org/10.1007/s00442-012-2360-6"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Oecologia", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00442-012-2360-6", "name": "item", "description": "10.1007/s00442-012-2360-6", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00442-012-2360-6"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2012-05-22T00:00:00Z"}}, {"id": "10.1007/s00442-012-2578-3", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:14:54Z", "type": "Journal Article", "created": "2013-01-07", "title": "Effects Of Drought And N-Fertilization On N Cycling In Two Grassland Soils", "description": "Open AccessOecologia, 171 (3)", "keywords": ["[SDE] Environmental Sciences", "N2O fluxes", "550", "functional genes", "Nitrogen", "[SDV]Life Sciences [q-bio]", "Climate", "Climate Change", "Nitrification and denitrification", "enzyme activites", "Urine", "630", "10127 Institute of Evolutionary Biology and Environmental Studies", "Soil", "Quantitative PCR", "Climate change; Enzyme activities; Functional genes; Quantitative PCR; Nitrification and denitrification; N2O fluxes", "[SDV.BV]Life Sciences [q-bio]/Vegetal Biology", "Animals", "Climate change", "Enzyme activities", "[SDV.BV] Life Sciences [q-bio]/Vegetal Biology", "Ecosystem", "Soil Microbiology", "Functional genes", "Nitrogen Cycle", "Plants", "Archaea", "Droughts", "[SDV] Life Sciences [q-bio]", "1105 Ecology", " Evolution", " Behavior and Systematics", "climate change", "Genes", " Bacterial", "[SDE]Environmental Sciences", "quantitative PCR", "Denitrification", "570 Life sciences; biology", "590 Animals (Zoology)", "Cattle", "nitrification and denitrification"]}, "links": [{"href": "https://doi.org/10.1007/s00442-012-2578-3"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Oecologia", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00442-012-2578-3", "name": "item", "description": "10.1007/s00442-012-2578-3", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00442-012-2578-3"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-01-08T00:00:00Z"}}, {"id": "10.1007/s10021-009-9305-x", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:14:58Z", "type": "Journal Article", "created": "2010-01-04", "title": "Effects Of A Hurricane Disturbance On Aboveground Forest Structure, Arbuscular Mycorrhizae And Belowground Carbon In A Restored Tropical Forest", "description": "To better understand how management and restoration practices influence the response of terrestrial ecosystems to large-scale disturbances, it is critical to study above- and belowground effects. In this study, we examined the immediate effect of a major hurricane on aboveground forest structure, arbuscular mycorrhizae (AM) and belowground carbon pools in experimentally thinned plots in a tropical forest. The hurricane occurred five years after a thinning treatment, when thinned plots had similar aboveground carbon stocks but different forest structure compared to control plots. Thinned plots had more large diameter (>10 cm) trees compared to the control plots, which were characterized by a higher density of small diameter (<10 cm) trees. Despite pre-hurricane differences in forest structure, there were no significant differences between treatments in changes of canopy openness or number of affected trees following the hurricane. Thinned plots had larger belowground carbon pools than the controls plots before the hurricane, and these differences remained after the hurricane despite rapid decomposition of organic matter rich in nitrogen. There were no pre-hurricane differences in AM fungal spores or total AM root colonization. The hurricane reduced AM sporulation by nearly 50% in both treatments, yet we observed a significant increase in AM root colonization after the hurricane with greater AM colonization in the thinned plots. Hurricanes have well-known visible aboveground effects, but here we showed that less visible belowground effects are influenced by forest management and may play an important role in forest recovery.", "keywords": ["0106 biological sciences", "Ecology", "13. Climate action", "Environmental Chemistry", "15. Life on land", "01 natural sciences", "Ecology", " Evolution", " Behavior and Systematics"]}, "links": [{"href": "https://doi.org/10.1007/s10021-009-9305-x"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecosystems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s10021-009-9305-x", "name": "item", "description": "10.1007/s10021-009-9305-x", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s10021-009-9305-x"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2010-01-01T00:00:00Z"}}, {"id": "10.1007/s10021-013-9690-z", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:14:59Z", "type": "Journal Article", "created": "2013-06-28", "title": "Pedogenic Thresholds And Soil Process Domains In Basalt-Derived Soils", "description": "Pedogenic thresholds occur where soil properties change abruptly and/or nonlinearly with a small increment in environmental forcing; soil process domains are the regions between thresholds where soils change much more gradually across a large range of environmental forcing. We evaluated thresholds and domains in basalt-derived soils on two rainfall gradients in Hawaii\u2014one from 260 to 3,540 mm/y precipitation on 150,000-year-old substrate, the other from 600 to 3,760 mm/y on 4,100,000-year-old substrate. We identified thresholds associated with the initiation of biological uplift of nutrients at about 700 mm/y on the younger substrate, the depletion of primary minerals at about 2,100 mm/y on the younger and about 900 mm/y on the older substrate, and the initiation of anoxic conditions and associated Fe mobility at about 2,500 mm/y on the older substrate. These thresholds delineated process domains characterized by pedogenic carbonate accumulation and wind erosion (dry young substrate); by weathering and biological uplift of nutrients (intermediate rainfall young substrate and dry old substrate); by surface Fe enrichment and nutrient depletion (wet young substrate and intermediate rainfall old substrate); and by Fe mobilization and loss (wet old substrate). Soils on the older substrate were more highly weathered, lower in total and available P, and characterized by more crystalline clays than otherwise comparable soils on the younger substrate. Prior to European contact, Hawaiian cultivators developed an intensive rainfed agricultural system in the weathering/biological uplift domain on the younger substrate; we suggest that only this domain could support indigenous agricultural intensification in upland soils.", "keywords": ["2. Zero hunger", "Ecology", "biological uplift", "pedogenic threshold", "04 agricultural and veterinary sciences", "Biological Sciences", "15. Life on land", "01 natural sciences", "Hawaii", "gradient", "weathering", "Environmental Chemistry", "0401 agriculture", " forestry", " and fisheries", "indigenous agriculture", "process domain", "Environmental Sciences", "Ecology", " Evolution", " Behavior and Systematics", "basalt-derived soil", "0105 earth and related environmental sciences"], "contacts": [{"organization": "Vitousek, Peter M, Chadwick, Oliver A,", "roles": ["creator"]}]}, "links": [{"href": "https://escholarship.org/content/qt0267w3mm/qt0267w3mm.pdf"}, {"href": "https://doi.org/10.1007/s10021-013-9690-z"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecosystems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s10021-013-9690-z", "name": "item", "description": "10.1007/s10021-013-9690-z", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s10021-013-9690-z"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-06-29T00:00:00Z"}}, {"id": "10.1007/s10530-010-9921-6", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:15:04Z", "type": "Journal Article", "created": "2010-12-10", "title": "Frequent Burning Promotes Invasions Of Alien Plants Into A Mesic African Savanna", "description": "Fire is both inevitable and necessary for maintaining the structure and functioning of mesic savannas. Without disturbances such as fire and herbivory, tree cover can increase at the expense of grass cover and over time dominate mesic savannas. Consequently, repeated burning is widely used to suppress tree recruitment and control bush encroachment. However, the effect of regular burning on invasion by alien plant species is little understood. Here, vegetation data from a long-term fire experiment, which began in 1953 in a mesic Zimbabwean savanna, were used to test whether the frequency of burning promoted alien plant invasion. The fire treatments consisted of late season fires, lit at 1-, 2-, 3-, and 4-year intervals, and these regularly burnt plots were compared with unburnt plots. Results show that over half a century of frequent burning promoted the invasion by alien plants relative to areas where fire was excluded. More alien plant species became established in plots that had a higher frequency of burning. The proportion of alien species in the species assemblage was highest in the annually burnt plots followed by plots burnt biennially. Alien plant invasion was lowest in plots protected from fire but did not differ significantly between plots burnt triennially and quadrennially. Further, the abundance of five alien forbs increased significantly as the interval (in years) between fires became shorter. On average, the density of these alien forbs in annually burnt plots was at least ten times as high as the density of unburnt plots. Plant diversity was also altered by long-term burning. Total plant species richness was significantly lower in the unburnt plots compared to regularly burnt plots. These findings suggest that frequent burning of mesic savannas enhances invasion by alien plants, with short intervals between fires favouring alien forbs. Therefore, reducing the frequency of burning may be a key to minimising the risk of alien plant spread into mesic savannas, which is important because invasive plants pose a threat to native biodiversity and may alter savanna functioning.", "keywords": ["disturbance", "0106 biological sciences", "2. Zero hunger", "Ecology", "kruger-national-park", "south-africa", "biological invasions", "15. Life on land", "01 natural sciences", "METIS-302982", "vegetation", "ITC-ISI-JOURNAL-ARTICLE", "evolution", "ecology", "propagule pressure", "ecosystems", "fire-management", "Ecology", " Evolution", " Behavior and Systematics"]}, "links": [{"href": "https://doi.org/10.1007/s10530-010-9921-6"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Biological%20Invasions", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s10530-010-9921-6", "name": "item", "description": "10.1007/s10530-010-9921-6", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s10530-010-9921-6"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2010-12-11T00:00:00Z"}}, {"id": "10.1007/s10530-011-0102-z", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:15:04Z", "type": "Journal Article", "created": "2011-09-15", "title": "Managing Invasions At The Cost Of Native Habitat? An Experimental Test Of The Impact Of Fire On The Invasion Of Chromolaena Odorata In A South African Savanna", "description": "<p>Successfully managing invasive plants in natural systems is extremely difficult. Recently however, progress has been made with an approach focused on changing ecosystem processes through the disturbance regime. We performed a large-scale (3 ha) full-factorial field experiment in densely invaded woodland in Hluhluwe-iMfolozi Park, a savanna reserve in South Africa, to study the effect of fire on the control of the pan-tropical invasive exotic shrub Chromolaena odorata in combination with the conventional method, i.e. manual clearing and herbicide application. We show how fire interacted with the conventional clearing of C. odorata and induced an intense canopy fire that caused a shift from woodland to grassland. After 2.5 years of monitoring, grasses were still dominant and re-invasion minimal. It is important to note that fire without prior clearing did not have the same effect and was not successful in reducing densities of C. odorata. An integrated control practice targeting the species with mechanical and chemical methods, while simultaneously targeting its habitat through fire, effectively controlled dense C. odorata thickets during the course of the experiment. However, this approach transformed regular surface fires into high-intensity canopy fires that are rare in savannas. We discuss how this altered fire regime may threaten native habitats, including fire-sensitive forest patches and riverine woodlands within the savanna mozaic. This is an important dilemma for managers that should not be overlooked and asks for long-term data on the impact of control programs on the native vegetation.</p>", "keywords": ["ALIEN PLANTS", "0106 biological sciences", "570", "BURN AGRICULTURE", "Ecology", "Conservation", "15. Life on land", "Fire", "ECOLOGY", "01 natural sciences", "Integrative management", "Tree-grass dynamics", "Hluhluwe-iMfolozi Park", "BIOLOGICAL INVASIONS", "EUPATORIUM-ODORATUM", "NATURE RESERVES", "ECOSYSTEMS", "Biological invasions", "NATIONAL-PARK", "ENVIRONMENTS FOLLOWING SLASH", "Ecology", " Evolution", " Behavior and Systematics", "TROPICAL SAVANNAS"]}, "links": [{"href": "https://doi.org/10.1007/s10530-011-0102-z"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Biological%20Invasions", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s10530-011-0102-z", "name": "item", "description": "10.1007/s10530-011-0102-z", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s10530-011-0102-z"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2011-09-16T00:00:00Z"}}, {"id": "10.1007/s10584-012-0438-0", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:15:08Z", "type": "Journal Article", "created": "2012-03-27", "title": "Carbon Sequestration Potential Of Parkland Agroforestry In The Sahel", "description": "Abstract           <p>Establishing parkland agroforestry on currently treeless cropland in the West African Sahel may help mitigate climate change. To evaluate its potential, we used climatically suitable ranges for parklands for 19 climate scenarios, derived by ecological niche modeling, for estimating potential carbon stocks in parkland and treeless cropland. A biocarbon business model was used to evaluate profitability of hypothetical Terrestrial Carbon Projects (TCPs), across a range of farm sizes, farm numbers, carbon prices and benefit sharing mechanisms. Using climate analogues, we explored potential climate change trajectories for selected locations. If mature parklands covered their maximum range, carbon stocks in Sahelian productive land would be about 1,284\uffc2\uffa0Tg, compared to 725\uffc2\uffa0Tg in a treeless scenario. Due to slow increase rates of total system carbon by 0.4\uffc2\uffa0Mg\uffc2\uffa0C\uffc2\uffa0ha\uffe2\uff88\uff921 a\uffe2\uff88\uff921, most TCPs at carbon prices that seem realistic today were not feasible, or required the participation of large numbers of farmers. For small farms, few TCP scenarios were feasible, and low Net Present Values for farmers made it unlikely that carbon payments would motivate many to participate in TCPs, unless additional benefits were provided. Climate analogue locations indicated an uncertain climate trajectory for the Sahel, but most scenarios projected increasing aridity and reduced suitability for parklands. The potentially severe impacts of climate change on Sahelian ecosystems and the uncertain profitability of TCPs make the Sahel highly risky for carbon investments. Given the likelihood of degrading environmental conditions, the search for appropriate adaptation strategies should take precedence over promoting mitigation activities.</p>", "keywords": ["Carbon sequestration", "Carbon accounting", "Atmospheric Science", "Adaptation to Climate Change in Agriculture", "Economics", "Profitability index", "7. Clean energy", "01 natural sciences", "agroforestry", "Agricultural and Biological Sciences", "Climate change mitigation", "Range (aeronautics)", "Rangeland Degradation", "Natural resource economics", "Soil water", "11. Sustainability", "Rangeland Degradation and Pastoral Livelihoods", "Carbon fibers", "Climate change", "Business", "agriculture", "2. Zero hunger", "Global and Planetary Change", "Ecology", "Life Sciences", "Composite number", "04 agricultural and veterinary sciences", "Soil carbon", "Physical Sciences", "Composite material", "Atmospheric carbon cycle", "Management", " Monitoring", " Policy and Law", "Greenhouse gas", "Environmental science", "Global Forest Transition", "Agroforestry", "climate", "Biology", "Ecology", " Evolution", " Behavior and Systematics", "Ecosystem", "0105 earth and related environmental sciences", "Soil science", "15. Life on land", "carbon sequestration", "Materials science", "Carbon dioxide", "13. Climate action", "FOS: Biological sciences", "Environmental Science", "0401 agriculture", " forestry", " and fisheries", "Drivers and Impacts of Tropical Deforestation", "Finance"]}, "links": [{"href": "https://doi.org/10.1007/s10584-012-0438-0"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Climatic%20Change", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s10584-012-0438-0", "name": "item", "description": "10.1007/s10584-012-0438-0", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s10584-012-0438-0"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2012-03-28T00:00:00Z"}}, {"id": "10.1007/s11130-020-00799-y", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:15:24Z", "type": "Journal Article", "created": "2020-02-03", "title": "Profile and Content of Residual Alkaloids in Ten Ecotypes of Lupinus mutabilis Sweet after Aqueous Debittering Process", "description": "Abstract<p>The evaluation of the level of alkaloids in edible Lupinus species is crucial from a food safety point of view. Debittering of lupin seeds has a long history; however, the control of the level of alkaloids after processing the seeds is typically only evaluated by changes in the bitter taste. The aim of this study was to evaluate the profile and residual levels of quinolizidine alkaloids (QA) in (Lupinus mutabilis Sweet) after aqueous debittering process. Samples from 10 ecotypes from different areas of Peru were analyzed before and after the process. Based on results obtained by gas chromatography and mass spectrometry, from eight alkaloids identified before the debittering process, only small amounts of lupanine (avg. 0.0012\uffc2\uffa0g/100\uffc2\uffa0g DM) and sparteine (avg. 0.0014\uffc2\uffa0g/100\uffc2\uffa0g DM) remained in the seeds after the debittering process, and no other alkaloids were identified. The aqueous debittering process reduced the content of alkaloids to levels far below the maximal level allowed by international regulations (\uffe2\uff89\uffa4 0.2\uffc2\uffa0g/kg DM).</p>", "keywords": ["0301 basic medicine", "Lupin Seeds", "Sparteine", "Organic chemistry", "Propiedades fisicoqu\u00edmicas", "Plant Science", "Gas Chromatography-Mass Spectrometry", "Evolution and Nutritional Properties of Lupin Seeds", "Agricultural and Biological Sciences", "Food science", "Per\u00fa", "03 medical and health sciences", "Deshidrataci\u00f3n acuosa", "Alkaloids", "Secado", "Tarwi", "https://purl.org/pe-repo/ocde/ford#2.11.01", "Granos", "Composici\u00f3n qu\u00edmica", "ta116", "Biology", "Ecotipos", "Ecology", " Evolution", " Behavior and Systematics", "Ecotype", "2. Zero hunger", "Original Paper", "0303 health sciences", "Rendimiento", "Procesamiento", "Evaluaci\u00f3n", "ta1183", "An\u00e1lisis organol\u00e9ptico", "ta1182", "Botany", "Life Sciences", "Diversity and Applications of Cyperus Species", "Lupinus", "Chocho", "Chemistry", "Contenido proteico", "Evolution and Ecology of Endophyte-Grass Symbiosis", "Taste", "Seeds", "Lupinus mutabilis"]}, "links": [{"href": "http://link.springer.com/content/pdf/10.1007/s11130-020-00799-y.pdf"}, {"href": "https://doi.org/10.1007/s11130-020-00799-y"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Plant%20Foods%20for%20Human%20Nutrition", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s11130-020-00799-y", "name": "item", "description": "10.1007/s11130-020-00799-y", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s11130-020-00799-y"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-02-03T00:00:00Z"}}, {"id": "10.1016/j.agee.2015.04.035", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:15:45Z", "type": "Journal Article", "created": "2015-05-28", "title": "Management opportunities to mitigate greenhouse gas emissions from Chinese agriculture", "description": "Open AccessL'agriculture repr\u00e9sente environ 11\u00a0% des \u00e9missions nationales de gaz \u00e0 effet de serre (GES) de la Chine. Gr\u00e2ce \u00e0 l'adoption de meilleures pratiques de gestion sp\u00e9cifiques \u00e0 la r\u00e9gion, les agriculteurs chinois peuvent contribuer \u00e0 la r\u00e9duction des \u00e9missions tout en maintenant la s\u00e9curit\u00e9 alimentaire de leur grande population (>1 300 millions). Cet article pr\u00e9sente les r\u00e9sultats d'une \u00e9valuation ascendante visant \u00e0 quantifier le potentiel technique des mesures d'att\u00e9nuation pour l'agriculture chinoise \u00e0 l'aide d'une m\u00e9ta-analyse de donn\u00e9es provenant de 240 publications pour les terres cultiv\u00e9es, 67 publications pour les prairies et 139 publications pour le b\u00e9tail, et fournit le sc\u00e9nario de r\u00e9f\u00e9rence pour l'analyse des co\u00fbts des mesures d'att\u00e9nuation identifi\u00e9es. Les options de gestion pr\u00e9sentant le plus grand potentiel d'att\u00e9nuation pour le riz ou les syst\u00e8mes de culture \u00e0 base de riz sont le travail de conservation, l'irrigation contr\u00f4l\u00e9e\u00a0; le remplacement de l'ur\u00e9e par du sulfate d'ammonium, l'application d'inhibiteurs d'azote (N), l'application d'engrais \u00e0 teneur r\u00e9duite en azote, la culture int\u00e9gr\u00e9e du riz, du poisson et du canard et l'application de biochar. Une r\u00e9duction de 15\u00a0% de l'application moyenne actuelle d'engrais azot\u00e9s synth\u00e9tiques pour le riz en Chine, soit 231 kg N ha\u22121, entra\u00eenerait une diminution de 12\u00a0% des \u00e9missions directes d'oxyde nitreux (N2O) dans le sol. L'application combin\u00e9e d'engrais chimiques et organiques, le travail de conservation, l'application de biochar et l'application r\u00e9duite d'azote sont des mesures possibles qui peuvent r\u00e9duire les \u00e9missions globales de GES des syst\u00e8mes de culture en montagne. Les apports d'engrais conventionnels pour les l\u00e9gumes de serre repr\u00e9sentent plus de 2 \u00e0 8 fois la demande optimale en nutriments des cultures. Une r\u00e9duction de 20 \u00e0 40\u00a0% de l'application d'engrais azot\u00e9s sur les cultures mara\u00eech\u00e8res peut r\u00e9duire les \u00e9missions de N2O de 32 \u00e0 121\u00a0%, sans avoir d'impact n\u00e9gatif sur le rendement. L'une des mesures d'att\u00e9nuation les plus importantes pour les prairies agricoles pourrait \u00eatre la conversion de terres cultiv\u00e9es \u00e0 faible rendement, en particulier sur les pentes, en terres arbustives ou en prairies, ce qui est \u00e9galement une option prometteuse pour r\u00e9duire l'\u00e9rosion des sols. En outre, l'exclusion du p\u00e2turage et la r\u00e9duction de l'intensit\u00e9 du p\u00e2turage peuvent augmenter la s\u00e9questration du COS et r\u00e9duire les \u00e9missions globales tout en am\u00e9liorant les prairies largement d\u00e9grad\u00e9es. Pour la production animale, o\u00f9 le fourrage de mauvaise qualit\u00e9 est couramment nourri, l'am\u00e9lioration de la gestion des p\u00e2turages et de la qualit\u00e9 de l'alimentation peut r\u00e9duire les \u00e9missions de m\u00e9thane (CH4) de 11\u00a0% et 5\u00a0% en moyenne. Les compl\u00e9ments alimentaires peuvent r\u00e9duire davantage les \u00e9missions de CH4, les lipides (r\u00e9duction de 15\u00a0%) et les tanins ou saponines (r\u00e9duction de 11\u00a0%) pr\u00e9sentant le plus grand potentiel. Nous sugg\u00e9rons \u00e9galement les mesures d'att\u00e9nuation les plus rentables sur le plan \u00e9conomique, en nous appuyant sur les travaux connexes sur la construction de courbes de co\u00fbts marginaux de r\u00e9duction pour le secteur.", "keywords": ["China", "Livestock", "550", "Cropping", "MACC", "Soil Science", "Cropland", "Rice Water Management and Productivity Enhancement", "Plant Science", "Greenhouse gas", "01 natural sciences", "7. Clean energy", "630", "Environmental science", "Meta-analysis in Ecology and Agriculture Research", "Tillage", "12. Responsible consumption", "Agricultural and Biological Sciences", "Fertilizer", "Engineering", "11. Sustainability", "Agroforestry", "Waste management", "Biology", "Ecology", " Evolution", " Behavior and Systematics", "0105 earth and related environmental sciences", "2. Zero hunger", "Technical potential", "Geography", "Ecology", "Economic potential", "Life Sciences", "Nutrient management", "Agriculture", "04 agricultural and veterinary sciences", "15. Life on land", "Grassland", "Agronomy", "6. Clean water", "Management", "Biochar", "Archaeology", "13. Climate action", "FOS: Biological sciences", "0401 agriculture", " forestry", " and fisheries", "Soil Carbon Dynamics and Nutrient Cycling in Ecosystems", "Aerobic Rice Systems", "Pyrolysis"]}, "links": [{"href": "https://doi.org/10.1016/j.agee.2015.04.035"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Agriculture%2C%20Ecosystems%20%26amp%3B%20Environment", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.agee.2015.04.035", "name": "item", "description": "10.1016/j.agee.2015.04.035", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.agee.2015.04.035"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2015-11-01T00:00:00Z"}}, {"id": "10.1016/j.envexpbot.2020.104095", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:16:19Z", "type": "Journal Article", "created": "2020-04-25", "title": "Alternation of wet and dry sides during partial rootzone drying irrigation enhances leaf ethylene evolution", "description": "Soil drying increases endogenous ABA and ACC concentrations in planta, but how these compounds interact to regulate stomatal responses to soil drying and re-watering is still unclear. To determine the temporal dynamics and physiological significance of root, xylem and leaf ABA and ACC concentrations in response to deficit irrigation (DI) or partial rootzone drying (PRD-F) and re-watering, these variables were measured in plants exposed to similar whole pot soil water contents. Both DI and PRD-F plants received only a fraction of the irrigation supplied to well-watered (WW) plants, either to all (DI) or part (PRD-F) of the rootzone of plants grown in split-pots. Both DI and PRD-F induced partial stomatal closure, increased root ABA and ACC accumulation consistent with local soil water content, but did not affect xylem or leaf concentrations of these compounds compared to WW plants. Two hours after re-watering all (DI-RW) or part of the rootzone (PRD-A) to the same soil water content, stomatal conductance returned to WW values or further decreased respectively. Re-watering the whole rootzone had no effect on xylem and leaf ABA and ACC concentrations, while re-watering the dry side of the pot in PRD plants had no effect on xylem and leaf ABA concentrations but increased xylem and leaf ACC concentrations and leaf ethylene evolution. Leaf water potential was similar between all irrigation treatments, with stomatal conductance declining as xylem ABA concentrations and leaf ACC concentrations increased. Prior to re-watering PRD plants, accounting for the spatial differences in soil water uptake best explained variation in xylem ACC concentration suggesting root-to-shoot ACC signalling, but this model did not account for variation in xylem ACC concentration after re-watering the dry side of PRD plants. Thus local (foliar) and long-distance (root-to-shoot) variation in ACC status both seem important in regulating the temporal dynamics of foliar ethylene evolution in plants exposed to PRD.", "keywords": ["0106 biological sciences", "Irrigation", "Stomatal conductance", "Root-to-shoot signalling", "Ethylene", "Physiological significance", "Deficit irrigation", "Plant Science", "Leaf water", "F06 Irrigation", "01 natural sciences", "ACC", "Ecology", " Evolution", " Behavior and Systematics", "580", "2. Zero hunger", "Xylem", "15. Life on land", "F60 Plant physiology and biochemistry", "6. Clean water", "Horticulture", "13. Climate action", "Soil water", "Agronomy and Crop Science", "Soil moisture heterogeneity", "Partial rootzone drying"]}, "links": [{"href": "https://eprints.lancs.ac.uk/id/eprint/144510/1/Juan_EEB_Manuscript_final.pdf"}, {"href": "https://doi.org/10.1016/j.envexpbot.2020.104095"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20and%20Experimental%20Botany", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.envexpbot.2020.104095", "name": "item", "description": "10.1016/j.envexpbot.2020.104095", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.envexpbot.2020.104095"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-08-01T00:00:00Z"}}, {"id": "10.1016/j.pedobi.2017.01.001", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:16:55Z", "type": "Journal Article", "created": "2017-01-05", "title": "Earthworm Populations Are Affected From Long-Term Crop Sequences And Bio-Covers Under No-Tillage", "description": "Abstract   Earthworms are crucial for improving soil biophysical properties in cropping systems. Consequently, effects of cropping rotation and bio-covers were assessed on earthworm populations under no-tillage. Main effects of six different cropping [corn ( Zea mays ), cotton ( Gossypium hirsutum ), and soybean ( Glycine max )] rotations ranging from monocultures to greater rotation complexity were implemented in four-year cycles for 12 years at two sites in Tennessee, USA with split-block bio-cover treatments of hairy vetch ( Vicia villosa ), wheat ( Triticum aestivum ), poultry litter, and a fallow control. Earthworms were collected to a 15\u00a0cm depth, hand sorted, and identified spring of 2013 and 2015 as one of three species (i.e.,  Diplocardia caroliniana ,  Lumbricus rubellus , or  Amyntha  spp.). Species richness and relative abundance were significantly affected by bio-covers and cropping sequences for both years at one site, but only by bio-covers at the other location. Under continuous cotton, overall earthworm populations were reduced 55\u201368%, and  D. caroliniana  decreased as much as 88%. Conversely, sequences with soybean and corn had larger populations of  D. caroliniana , which did not differ when in rotations, indicating favorable food sources in their rhizospheres. Poultry litter supported 2.2 times as many  D. caroliniana  and  L. rubellus  across locations and years, compared to cover crops and the control. Consequently, earthworm populations were greatest under nutrient rich bio-covers (poultry litter) and high residue, less pesticide-intensive rotations (soybean and corn), suggesting a more dynamic soil ecology in these systems. Negative effects of cotton might be mitigated by fewer pesticide inputs, increased crop rotations, and poultry litter amendments.", "keywords": ["2. Zero hunger", "Soil Science", "0401 agriculture", " forestry", " and fisheries", "04 agricultural and veterinary sciences", "15. Life on land", "Ecology", " Evolution", " Behavior and Systematics"], "contacts": [{"organization": "Martin J. Shipitalo, Donald D. Tyler, Daniel H. Pote, Fred L. Allen, Amanda J. Ashworth,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1016/j.pedobi.2017.01.001"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Pedobiologia", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.pedobi.2017.01.001", "name": "item", "description": "10.1016/j.pedobi.2017.01.001", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.pedobi.2017.01.001"}, {"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": "10.1371/journal.pone.0204597", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:19:44Z", "type": "Journal Article", "created": "2018-10-16", "title": 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\u0644\u0644\u062d\u0641\u0627\u0638 \u0639\u0644\u0649 \u0627\u0644\u063a\u0644\u0629\u060c \u0648\u0632\u064a\u0627\u062f\u0629 \u0643\u0641\u0627\u0621\u0629 \u0627\u0633\u062a\u062e\u062f\u0627\u0645 \u0645\u064a\u0627\u0647 \u0627\u0644\u0631\u064a\u060c \u0648\u0627\u0644\u062a\u062e\u0641\u064a\u0641 \u0645\u0646 \u0627\u0646\u0628\u0639\u0627\u062b\u0627\u062a \u062b\u0627\u0646\u064a \u0623\u0643\u0633\u064a\u062f \u0627\u0644\u0643\u0631\u0628\u0648\u0646\u060c \u0648\u062a\u0639\u0632\u064a\u0632 \u062e\u0635\u0648\u0628\u0629 \u062a\u0631\u0628\u0629 \u0627\u0644\u0623\u0631\u0632.", "keywords": ["Agricultural Irrigation", "Ecosystem respiration", "Adaptation to Climate Change in Agriculture", "Agricultural and Biological Sciences", "Random Allocation", "Soil", "Soil water", "Paddy field", "2. Zero hunger", "Global and Planetary Change", "Primary production", "Ecology", "Respiration", "Q", "R", "Life Sciences", "Soil respiration", "04 agricultural and veterinary sciences", "Soil carbon", "Crop Production", "6. Clean water", "Physical Sciences", "Medicine", "Seasons", "Research Article", "Science", "Soil Science", "Environmental science", "12. Responsible consumption", "Greenhouse Gases", "Fertilizers", "Irrigation", "Biology", "Ecology", " Evolution", " Behavior and Systematics", "Ecosystem", "Soil science", "Conservation of Water Resources", "Soil Fertility", "Global Forest Drought Response and Climate Change", "Botany", "Water", "Oryza", "Carbon Dioxide", "15. Life on land", "Carbon", "Agronomy", "13. Climate action", "FOS: Biological sciences", "Environmental Science", "0401 agriculture", " forestry", " and fisheries", "Soil Carbon Dynamics and Nutrient Cycling in Ecosystems"]}, "links": [{"href": "https://doi.org/10.1371/journal.pone.0204597"}, {"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.0204597", "name": "item", "description": "10.1371/journal.pone.0204597", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1371/journal.pone.0204597"}, {"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": "10.1038/s41467-019-14197-9", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:17:56Z", "type": "Journal Article", "created": "2020-01-24", "title": "High-quality genome sequence of white lupin provides insight into soil exploration and seed quality", "description": "Abstract<p>White lupin (Lupinus albus L.) is an annual crop cultivated for its protein-rich seeds. It is adapted to poor soils due to the production of cluster roots, which are made of dozens of determinate lateral roots that drastically improve soil exploration and nutrient acquisition (mostly phosphate). Using long-read sequencing technologies, we provide a high-quality genome sequence of a cultivated accession of white lupin (2n\uffe2\uff80\uff89=\uffe2\uff80\uff8950, 451\uffe2\uff80\uff89Mb), as well as de novo assemblies of a landrace and a wild relative. We describe a modern accession displaying increased soil exploration capacity through early establishment of lateral and cluster roots. We also show how seed quality may have been impacted by domestication in term of protein profiles and alkaloid content. The availability of a high-quality genome assembly together with companion genomic and transcriptomic resources will enable the development of modern breeding strategies to increase and stabilize white lupin yield.</p>", "keywords": ["Repetitive Sequences", " Nucleic Acid/genetics", "0301 basic medicine", "[SDV]Life Sciences [q-bio]", "Plant Roots/genetics", "Gene Dosage", "Plant Science", "Crop", "Alkaloids/chemistry", "Plant Roots", "Gene", "Repetitive Sequences", "630", "Agricultural and Biological Sciences", "Domestication", "Soil", "Models", "Symbiotic Nitrogen Fixation in Legumes", "Gene Duplication", "[SDV.BV] Life Sciences [q-bio]/Vegetal Biology", "http://aims.fao.org/aos/agrovoc/c_3224", "Plant Proteins/metabolism", "Plant Proteins", "2. Zero hunger", "0303 health sciences", "Genome", "Q", "http://aims.fao.org/aos/agrovoc/c_27583", "Life Sciences", "Transcriptome/genetics", "http://aims.fao.org/aos/agrovoc/c_92382", "Polymorphism", " Single Nucleotide/genetics", "Lupinus", "[SDV] Life Sciences [q-bio]", "Protein Crop", "Seeds", "http://aims.fao.org/aos/agrovoc/c_5956", "White (mutation)", "Single Nucleotide/genetics", "Sequence Analysis", "Genome", " Plant", "expression des g\u00e8nes", "http://aims.fao.org/aos/agrovoc/c_4464", "Synteny/genetics", "Evolution", "Lupin Seeds", "Science", "Centromere", "Lupinus/genetics", "Polymorphism", " Single Nucleotide", "Article", "g\u00e9nomique", "Evolution", " Molecular", "Evolution and Nutritional Properties of Lupin Seeds", "physiologie v\u00e9g\u00e9tale", "03 medical and health sciences", "Alkaloids", "Genetic", "Nucleic Acid/genetics", "Seeds/physiology", "Centromere/genetics", "Genetics", "[SDV.BV]Life Sciences [q-bio]/Vegetal Biology", "Polymorphism", "Biology", "Ecology", " Evolution", " Behavior and Systematics", "Repetitive Sequences", " Nucleic Acid", "Sequence assembly", "http://aims.fao.org/aos/agrovoc/c_25189", "Ecotype", "Models", " Genetic", "g\u00e9nome", "Botany", "Molecular", "Genetic Variation", "Molecular Sequence Annotation", "Plant", "DNA", "Sequence Analysis", " DNA", "s\u00e9quence nucl\u00e9otidique", "15. Life on land", "http://aims.fao.org/aos/agrovoc/c_27527", "Agronomy", "Plant Leaves", "Evolution and Ecology of Endophyte-Grass Symbiosis", "Lupinus albus", "FOS: Biological sciences", "Genomic Structural Variation", "Plant Leaves/metabolism", "Gene expression", "Transcriptome", "am\u00e9lioration des plantes"]}, "links": [{"href": "https://www.nature.com/articles/s41467-019-14197-9.pdf"}, {"href": "https://doi.org/10.1038/s41467-019-14197-9"}, {"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/s41467-019-14197-9", "name": "item", "description": "10.1038/s41467-019-14197-9", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1038/s41467-019-14197-9"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-01-24T00:00:00Z"}}, {"id": "10.1038/s41559-022-01756-5", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:17:59Z", "type": "Journal Article", "created": "2022-05-09", "title": "Phylotype diversity within soil fungal functional groups drives ecosystem stability", "description": "Soil fungi are fundamental to plant productivity, yet their influence on the temporal stability of global terrestrial ecosystems, and their capacity to buffer plant productivity against extreme drought events, remain uncertain. Here we combined three independent global field surveys of soil fungi with a satellite-derived temporal assessment of plant productivity, and report that phylotype richness within particular fungal functional groups drives the stability of terrestrial ecosystems. The richness of fungal decomposers was consistently and positively associated with ecosystem stability worldwide, while the opposite pattern was found for the richness of fungal plant pathogens, particularly in grasslands. We further demonstrated that the richness of soil decomposers was consistently positively linked with higher resistance of plant productivity in response to extreme drought events, while that of fungal plant pathogens showed a general negative relationship with plant productivity resilience/resistance patterns. Together, our work provides evidence supporting the critical role of soil fungal diversity to secure stable plant production over time in global ecosystems, and to buffer against extreme climate events.", "keywords": ["0301 basic medicine", "Evolution", "Resistance", "580 Plants (Botany)", "Soil", "03 medical and health sciences", "10126 Department of Plant and Microbial Biology", "Behavior and Systematics", "Soil fungal", "XXXXXX - Unknown", "10211 Zurich-Basel Plant Science Center", "Phylotype diversity", "Ecosystem", "Soil Microbiology", "Productivity", "2. Zero hunger", "0303 health sciences", "Ecology", "Biodiversity", "Ecolog\u00eda", "Plants", "15. Life on land", "Protect", " restore and promote sustainable use of terrestrial ecosystems", " sustainably manage forests", " combat\u00a0desertification", " and halt and reverse land degradation and halt biodiversity loss", "Droughts", "1105 Ecology", " Evolution", " Behavior and Systematics", "13. Climate action", "Ecosystem stability", "http://metadata.un.org/sdg/15", "2303 Ecology"]}, "links": [{"href": "https://www.nature.com/articles/s41559-022-01756-5.pdf"}, {"href": "https://doi.org/10.1038/s41559-022-01756-5"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Nature%20Ecology%20%26amp%3B%20Evolution", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1038/s41559-022-01756-5", "name": "item", "description": "10.1038/s41559-022-01756-5", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1038/s41559-022-01756-5"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-05-09T00:00:00Z"}}, {"id": "10.1038/s41598-019-55251-2", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:18:00Z", "type": "Journal Article", "created": "2019-12-16", "title": "Assessing the impact of global climate changes on irrigated wheat yields and water requirements in a semi-arid environment of Morocco", "description": "Abstract<p>The present work aims to quantify the impact of climate change (CC) on the grain yields of irrigated cereals and their water requirements in the Tensift region of Morocco. The Med-CORDEX (MEDiterranean COordinated Regional Climate Downscaling EXperiment) ensemble runs under scenarios RCP4.5 (Representative Concentration Pathway) and RCP8.5 are first evaluated and disaggregated using the quantile-quantile approach. The impact of CC on the duration of the main wheat phenological stages based on the degree-day approach is then analyzed. The results show that the rise in air temperature causes a shortening of the development cycle of up to 50 days. The impacts of rising temperature and changes in precipitation on wheat yields are next evaluated, based on the AquaCrop model, both with and without taking into account the fertilizing effect of CO2. As expected, optimal wheat yields will decrease on the order of 7 to 30% if CO2 concentration rise is not considered. The fertilizing effect of CO2 can counterbalance yield losses, since optimal yields could increase by 7% and 13% respectively at mid-century for the RCP4.5 and RCP8.5 scenarios. Finally, water requirements are expected to decrease by 13 to 42%, mainly in response to the shortening of the cycle. This decrease is associated with a change in temporal patterns, with the requirement peak coming two months earlier than under current conditions.</p>", "keywords": ["Water resources", "Atmospheric sciences", "Agricultural Irrigation", "environment/Bioclimatology", "550", "Representative Concentration Pathways", "Adaptation to Climate Change in Agriculture", "Arid", "Rain", "[SDV.SA.AGRO]Life Sciences [q-bio]/Agricultural sciences/Agronomy", "Climate Change and Variability Research", "Plant Science", "Precipitation", "02 engineering and technology", "01 natural sciences", "Agricultural and Biological Sciences", "Downscaling", "Climate change", "Quantile", "Triticum", "Climatology", "2. Zero hunger", "Global and Planetary Change", "Ecology", "Geography", "Temperature", "Life Sciences", "Geology", "Morocco", "Phenology", "[SDV.EE.BIO]Life Sciences [q-bio]/Ecology", "Seeds", "Physical Sciences", "Metallurgy", "Desert Climate", "Impacts of Elevated CO2 and Ozone on Plant Physiology", "Climate Change", "0207 environmental engineering", "Yield (engineering)", "Climate model", "Article", "Environmental science", "FOS: Economics and business", "Meteorology", "FOS: Mathematics", "Econometrics", "[SDU.STU.HY]Sciences of the Universe [physics]/Earth Sciences/Hydrology", "Biology", "Ecology", " Evolution", " Behavior and Systematics", "0105 earth and related environmental sciences", "[SDV.SA.AGRO] Life Sciences [q-bio]/Agricultural sciences/Agronomy", "Water", "FOS: Earth and related environmental sciences", "Carbon Dioxide", "15. Life on land", "Agronomy", "Materials science", "[SDV.EE.BIO] Life Sciences [q-bio]/Ecology", " environment/Bioclimatology", "13. Climate action", "FOS: Biological sciences", "Environmental Science", "[SDU.STU.HY] Sciences of the Universe [physics]/Earth Sciences/Hydrology", "Crop Yield", "Mediterranean climate", "Mathematics", "Climate Modeling"]}, "links": [{"href": "https://www.nature.com/articles/s41598-019-55251-2.pdf"}, {"href": "https://doi.org/10.1038/s41598-019-55251-2"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Scientific%20Reports", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1038/s41598-019-55251-2", "name": "item", "description": "10.1038/s41598-019-55251-2", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1038/s41598-019-55251-2"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-12-16T00:00:00Z"}}, {"id": "10.1111/1755-0998.12949", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:18:49Z", "type": "Journal Article", "created": "2018-09-29", "title": "Conditionally autoregressive models improve occupancy analyses of autocorrelated data: An example with environmental DNA", "description": "Abstract<p>Site occupancy\uffe2\uff80\uff90detection models (SODMs) are statistical models widely used for biodiversity surveys where imperfect detection of species occurs. For instance, SODMs are increasingly used to analyse environmental DNA (eDNA) data, taking into account the occurrence of both false\uffe2\uff80\uff90positive and false\uffe2\uff80\uff90negative errors. However, species occurrence data are often characterized by spatial and temporal autocorrelation, which might challenge the use of standard SODMs. Here we reviewed the literature of eDNA biodiversity surveys and found that most of studies do not take into account spatial or temporal autocorrelation. We then demonstrated how the analysis of data with spatial or temporal autocorrelation can be improved by using a conditionally autoregressive SODM, and show its application to environmental DNA data. We tested the autoregressive model on both simulated and real data sets, including chronosequences with different degrees of autocorrelation, and a spatial data set on a virtual landscape. Analyses of simulated data showed that autoregressive SODMs perform better than traditional SODMs in the estimation of key parameters such as true\uffe2\uff80\uff90/false\uffe2\uff80\uff90positive rates and show a better discrimination capacity (e.g., higher true skill statistics). The usefulness of autoregressive SODMs was particularly high in data sets with strong autocorrelation. When applied to real eDNA data sets (eDNA from lake sediment cores and freshwater), autoregressive SODM provided more precise estimation of true\uffe2\uff80\uff90/false\uffe2\uff80\uff90positive rates, resulting in more reasonable inference of occupancy states. Our results suggest that analyses of occurrence data, such as many applications of eDNA, can be largely improved by applying conditionally autoregressive specifications to SODMs.</p>", "keywords": ["0106 biological sciences", "Genetics", " Population", "Spatio-Temporal Analysis", "330", "DNA", "[SDE.BE]Environmental Sciences/Biodiversity and Ecology", "Biostatistics", "15. Life on land", "Biota", "01 natural sciences", "conditionally autoregressive model; sedimentary DNA; spatial autocorrelation; species occupancy-detection model; temporal autocorrelation; true skill statistics; Biostatistics; DNA; Spatio-Temporal Analysis; Biota; Genetics", " Population; Biotechnology; Ecology", " Evolution", " Behavior and Systematics; Genetics"]}, "links": [{"href": "https://air.unimi.it/bitstream/2434/635968/2/Chen_et_al-2019-Molecular_Ecology_Resources.pdf"}, {"href": "https://onlinelibrary.wiley.com/doi/pdf/10.1111/1755-0998.12949"}, {"href": "https://doi.org/10.1111/1755-0998.12949"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Molecular%20Ecology%20Resources", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/1755-0998.12949", "name": "item", "description": "10.1111/1755-0998.12949", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/1755-0998.12949"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-11-01T00:00:00Z"}}, {"id": "10.1111/1365-2745.12959", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:18:47Z", "type": "Journal Article", "created": "2018-04-16", "title": "Intransitive competition is common across five major taxonomic groups and is driven by productivity, competitive rank and functional traits", "description": "Abstract<p><p>Competition can be fully hierarchical or intransitive, and this degree of hierarchy is driven by multiple factors, including environmental conditions, the functional traits of the species involved or the topology of competition networks. Studies simultaneously analysing these drivers of competition hierarchy are rare. Additionally, organisms compete either directly or via interference competition for resources or space, within a local neighbourhood or across the habitat. Therefore, the drivers of competition could change accordingly and depend on the taxa studied.</p><p>We performed the first multi\uffe2\uff80\uff90taxon study on pairwise competition across major taxonomic groups, including experiments with vascular plants, mosses, saprobic fungi, aquatic protists and soil bacteria. We evaluated how general is competition intransitivity from the pairwise competition matrix including all species and also for each possible three\uffe2\uff80\uff90species combination (triplets). We then examined which species were likely to engage in competitive loops and the effects of environmental conditions, competitive rank and functional traits on intransitive competition.</p><p>We found some degree of competition intransitivity in all taxa studied, with 38% to 5% of triplets being intransitive. Variance in competitive rank between species and more fertile conditions strongly reduced intransitivity, with triplets composed of species differing widely in their competitive ranks much less likely to be intransitive.</p><p>Including functional traits of the species involved more than doubled the variation explained compared to models including competitive rank only. Both trait means and variance within triplets affected the odds of them being intransitive. However, the traits responsible and the direction of trait effects varied widely between taxa, suggesting that traits can have a wide variety of effects on competition.</p><p>Synthesis. We evaluated the drivers of competition across multiple taxa and showed that productivity and competitive rank are fundamental drivers of intransitivity. We also showed that not only the functional traits of each species, but also those of the accompanying species, determine competition intransitivity. Intransitive competition is common across multiple taxa but can dampen under fertile conditions or for those species with large variance in their competitive abilities. This provides a first step towards predicting the prevalence of intransitive competition in natural communities.</p></p", "keywords": ["saprobic fungi", "0106 biological sciences", "bacteria", " bryophytes", " competition hierarchy", " coexistence", " functional traits", " protists", " rock-paper-scissors", " saprobic fungi", " vascular plants", "01 natural sciences", "10127 Institute of Evolutionary Biology and Environmental Studies", "bryophytes", "XXXXXX - Unknown", "Competition hierarchy", "1110 Plant Science", "competition hierarchy", "functional traits", "vascular plants", "bacteria", "580", "protists", "Bacteria", "Vascular plants", "Bryophytes", "Saprobic fungi", "rock\u2013paper\u2013scissors", "Protists", "Ecolog\u00eda", "15. Life on land", "1105 Ecology", " Evolution", " Behavior and Systematics", "570 Life sciences; biology", "590 Animals (Zoology)", "competition", "Rock\u2013paper\u2013scissors", "2303 Ecology", "Functional traits"]}, "links": [{"href": "https://besjournals.onlinelibrary.wiley.com/doi/pdf/10.1111/1365-2745.12959"}, {"href": "https://doi.org/10.1111/1365-2745.12959"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/1365-2745.12959", "name": "item", "description": "10.1111/1365-2745.12959", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/1365-2745.12959"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-04-16T00:00:00Z"}}, {"id": "10.1111/ddi.13146", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:18:50Z", "type": "Journal Article", "created": "2020-09-02", "title": "Shifting aspect or elevation? The climate change response of ectotherms in a complex mountain topography", "description": "AbstractAim<p>Climate change is expected to cause mountain species to shift their ranges to higher elevations. Due to the decreasing amounts of habitats with increasing elevation, such shifts are likely to increase their extinction risk. Heterogeneous mountain topography, however, may reduce this risk by providing microclimatic conditions that can buffer macroclimatic warming or provide nearby refugia. As aspect strongly influences the local microclimate, we here assess whether shifts from warm south\uffe2\uff80\uff90exposed aspects to cool north\uffe2\uff80\uff90exposed aspects in response to climate change can compensate for an upward shift into cooler elevations.</p>Location<p>Switzerland, Swiss Alps.</p>Methods<p>We built ensemble distribution models using high\uffe2\uff80\uff90resolution climate data for two mountain\uffe2\uff80\uff90dwelling viviparous ectotherms, the Alpine salamander and the Common lizard, and projected them into various future scenarios to gain insights into distributional changes. We further compared elevation and aspect (northness) of current and predicted future locations to analyse preferences and future shifts.</p>Results<p>Future ranges were consistently decreasing for the lizard, but for the salamander they were highly variable, depending on the climate scenario and threshold rule. Aspect preferences were elevation\uffe2\uff80\uff90dependent: warmer, south\uffe2\uff80\uff90exposed microclimates were clearly preferred at higher compared to lower elevations. In terms of presence and future locations, we observed both elevational upward shifts and northward shifts in aspect. Under future conditions, the shift to cooler north\uffe2\uff80\uff90exposed aspects was particularly pronounced at already warmer lower elevations.</p>Main conclusions<p>For our study species, shifts in aspect and elevation are complementary strategies to mitigate climatic warming in the complex mountain topography. This complements the long\uffe2\uff80\uff90standing view of elevational upward shift being their only option to move into areas with suitable future climate. High\uffe2\uff80\uff90resolution climate data are critical in heterogeneous environments to identify microrefugia and thereby improving future impact assessments of climate change.</p>", "keywords": ["0106 biological sciences", "0301 basic medicine", "570", "4290733-0", "elevation", "aspect", "Modellierung", "4077275-5", "ddc:900", "01 natural sciences", "4128128-7", "10127 Institute of Evolutionary Biology and Environmental Studies", "03 medical and health sciences", "4170297-9", "Schweizer Alpen", "Anthropogene Klima\u00e4nderung", "Wechselwarme", "aspect; climate change; ectotherms; microrefugia; mountain topography; Salamandra atra; species distribution modelling; Switzerland; thresholds; Zootoca vivipara", "4189352-9", "shift", "15. Life on land", "reptile", "1105 Ecology", " Evolution", " Behavior and Systematics", "climate change", "Geschichte und Geografie", "900", "13. Climate action", "Anpassung", "570 Life sciences; biology", "590 Animals (Zoology)", "amphibian", "[SDE.BE]Environmental Sciences/Biodiversity and Ecology"]}, "links": [{"href": "https://air.unimi.it/bitstream/2434/785568/2/feldmeier%202020%20divers%20distrib.pdf"}, {"href": "https://onlinelibrary.wiley.com/doi/pdf/10.1111/ddi.13146"}, {"href": "https://doi.org/10.1111/ddi.13146"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Diversity%20and%20Distributions", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/ddi.13146", "name": "item", "description": "10.1111/ddi.13146", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/ddi.13146"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-08-26T00:00:00Z"}}, {"id": "10.1126/sciadv.adj8016", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:19:22Z", "type": "Journal Article", "created": "2023-11-29", "title": "Connecting the multiple dimensions of global soil fungal diversity", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>How the multiple facets of soil fungal diversity vary worldwide remains virtually unknown, hindering the management of this essential species-rich group. By sequencing high-resolution DNA markers in over 4000 topsoil samples from natural and human-altered ecosystems across all continents, we illustrate the distributions and drivers of different levels of taxonomic and phylogenetic diversity of fungi and their ecological groups. We show the impact of precipitation and temperature interactions on local fungal species richness (alpha diversity) across different climates. Our findings reveal how temperature drives fungal compositional turnover (beta diversity) and phylogenetic diversity, linking them with regional species richness (gamma diversity). We integrate fungi into the principles of global biodiversity distribution and present detailed maps for biodiversity conservation and modeling of global ecological processes.</p></article>", "keywords": ["Supplementary Data", "biodiversity", " fungi", " ecology", "QH301 Biology", "Diversity (politics)", "Plant Science", "Biodiversity conservation", "Fungal Diversity", "Agricultural and Biological Sciences", "Soil", "Life", "Sociology", "WATER", "Global biodiversity distribution", "Fungal diversity", "Phylogeny", "Soil Microbiology", "2. Zero hunger", "Multidisciplinary", "Earth", " Environmental", " Ecological", " and Space Sciences", "Geography", "Ecology", "soil fungal diversity", "4. Education", "SPECIES RICHNESS", "Life Sciences", "https://www.science.org/doi/suppl/10.1126/sciadv.adj8016/suppl_file/sciadv.adj8016_sm.pdf", "Biodiversity", "FOS: Sociology", "global biodiversity distribution", "sienet", "https://www.science.org/doi/suppl/10.1126/sciadv.adj8016/suppl_file/sciadv.adj8016_tables_s1_to_s13.zip", "Diversity and Evolution of Fungal Pathogens", "570", "Supplementary Information", "DNA markers", "QH301", "Sequencing high-resolution DNA", "Biochemistry", " Genetics and Molecular Biology", "monimuotoisuus", "Mycorrhizal Fungi and Plant Interactions", "Life Science", "Humans", "14. Life underwater", "General", "Global ecological processes", "Biology", "Ecosystem", "Ecology", " Evolution", " Behavior and Systematics", "global ecological processes", "Soil fungal diversity", "microbiology", "Fungi", "Water", "Cell Biology", "15. Life on land", "luonnon monimuotoisuus", "Agronomy", "biodiversiteetti", "LIFE", "ekosysteemit (ekologia)", "Evolution and Ecology of Endophyte-Grass Symbiosis", "13. Climate action", "Ecology", " evolutionary biology", "Earth and Environmental Sciences", "FOS: Biological sciences", "Anthropology", "ta1181", "biodiversity conservation", "Species richness"]}, "links": [{"href": "https://www.science.org/doi/epdf/10.1126/sciadv.adj8016"}, {"href": "https://www.science.org/doi/pdf/10.1126/sciadv.adj8016"}, {"href": "https://doi.org/10.1126/sciadv.adj8016"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Science%20Advances", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1126/sciadv.adj8016", "name": "item", "description": "10.1126/sciadv.adj8016", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1126/sciadv.adj8016"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-12-01T00:00:00Z"}}, {"id": "10.1111/rec.12541", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:19:19Z", "type": "Journal Article", "created": "2017-08-22", "title": "A theory of participation: what makes stakeholder and public engagement in environmental management work?", "description": "Abstract<p>This article differentiates between descriptive and explanatory factors to develop a typology and a theory of stakeholder and public engagement. The typology describes different types of public and stakeholder engagement, and the theory comprises four factors that explain much of the variation in outcomes (for the natural environment and/or for participants) between different types of engagement. First, we use a narrative literature search to develop a new typology of stakeholder and public engagement based on agency (who initiates and leads engagement) and mode of engagement (from communication to coproduction). We then propose a theory to explain the variation in outcomes from different types of engagement: (1) a number of socioeconomic, cultural, and institutional contextual factors influence the outcomes of engagement; (2) there are a number of process design factors that can increase the likelihood that engagement leads to desired outcomes, across a wide range of sociocultural, political, economic, and biophysical contexts; (3) the effectiveness of engagement is significantly influenced by power dynamics, the values of participants, and their epistemologies, that is, the way they construct knowledge and which types of knowledge they consider valid; and (4) engagement processes work differently and can lead to different outcomes when they operate over different spatial and temporal scales. We use the theoretical framework to provide practical guidance for those designing engagement processes, arguing that a theoretically informed approach to stakeholder and public engagement has the potential to markedly improve the outcomes of environmental decision\uffe2\uff80\uff90making processes.</p", "keywords": ["Engagement", "/dk/atira/pure/core/keywords/nachhaltigkeitswissenschaft; name=Sustainability Science", "0211 other engineering and technologies", "02 engineering and technology", "16. Peace & justice", "/dk/atira/pure/subjectarea/asjc/1100/1105; name=Ecology", " Evolution", " Behavior and Systematics", "01 natural sciences", "Knowledge exchange", "Impact", "13. Climate action", "/dk/atira/pure/subjectarea/asjc/2300/2303; name=Ecology", "/dk/atira/pure/subjectarea/asjc/2300/2309; name=Nature and Landscape Conservation", "Decision-making", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://onlinelibrary.wiley.com/doi/pdf/10.1111/rec.12541"}, {"href": "https://doi.org/10.1111/rec.12541"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Restoration%20Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/rec.12541", "name": "item", "description": "10.1111/rec.12541", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/rec.12541"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-08-22T00:00:00Z"}}, {"id": "10.1128/msystems.00859-24", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:19:24Z", "type": "Journal Article", "created": "2024-09-10", "title": "A novel barcoded nanopore sequencing workflow of high-quality, full-length bacterial 16S amplicons for taxonomic annotation of bacterial isolates and complex microbial communities", "description": "ABSTRACT                                     <p>               Due to recent improvements, Nanopore sequencing has become a promising method for experiments relying on amplicon sequencing. We describe a flexible workflow to generate and annotate high-quality, full-length 16S rDNA amplicons. We evaluated it for two applications, namely, (i) identification of bacterial isolates and (ii) species-level profiling of microbial communities. We assessed the identification of single bacterial isolates by sequencing, using a set of barcoded full-length 16S rRNA gene primer pairs (pair A), on 47 isolates encompassing multiple genera and compared those results with matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS)-based identification. Species-level community profiling was tested with two sets of barcoded full-length 16S primer pairs (A and B) and compared to the results obtained with shotgun Illumina sequencing using 27 stool samples. We developed a Nextflow pipeline to retain high-quality reads and taxonomically annotate them. We found high agreement between our workflow and MALDI-TOF data for isolate identification (positive predictive value = 0.90, Cram\uffc3\uffa9r\uffe2\uff80\uff99s               V               = 0.857, and Theil\uffe2\uff80\uff99s               U               = 0.316). For species-level community profiling, we found strong correlations (               r                                s                              &gt; 0.6) of alpha diversity indices between the two primer sets and Illumina sequencing. At the community level, we found significant but small differences when comparing sequencing techniques. Finally, we found a moderate to strong correlation when comparing the relative abundances of individual species (average               r                                s                              = 0.6 and 0.533 for primers A and B). Despite identified shortcomings, the proposed workflow enabled accurate identification of single bacterial isolates and prominent features in microbial communities, making it a worthwhile alternative to MALDI-TOF MS and Illumina sequencing.             </p>                            IMPORTANCE               <p>A quick, robust, simple, and cost-effective method to identify bacterial isolates and communities in each sample is indispensable in the fields of microbiology and infection biology. Recent technological advances in Oxford Nanopore Technologies sequencing make this technique an attractive option considering the adaptability, portability, and cost-effectiveness of the platform, even with small sequencing batches. Here, we validated a flexible workflow to identify bacterial isolates and characterize bacterial communities using the Oxford Nanopore Technologies sequencing platform combined with the most recent v14 chemistry kits. For bacterial isolates, we compared our nanopore-based approach to matrix-assisted laser desorption ionization-time of flight mass spectrometry-based identification. For species-level profiling of complex bacterial communities, we compared our nanopore-based approach to Illumina shotgun sequencing. For reproducibility purposes, we wrapped the code used to process the sequencing data into a ready-to-use and self-contained Nextflow pipeline.</p>", "keywords": ["DNA", " Bacterial", "1303 Biochemistry", "gut microbiome", "610 Medicine & health", "Microbiology", "Workflow", "1311 Genetics", "RNA", " Ribosomal", " 16S", "1312 Molecular Biology", "1706 Computer Science Applications", "DNA Barcoding", " Taxonomic", "Humans", "DNA sequencing", "Bacteria", "10179 Institute of Medical Microbiology", "Microbiota", "2404 Microbiology", "1314 Physiology", "bioinformatics", "QR1-502", "Nanopore Sequencing", "1105 Ecology", " Evolution", " Behavior and Systematics", "Spectrometry", " Mass", " Matrix-Assisted Laser Desorption-Ionization", "570 Life sciences; biology", "2611 Modeling and Simulation", "Research Article"]}, "links": [{"href": "https://doi.org/10.1128/msystems.00859-24"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/mSystems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1128/msystems.00859-24", "name": "item", "description": "10.1128/msystems.00859-24", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1128/msystems.00859-24"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-04-11T00:00:00Z"}}, {"id": "10.1371/journal.pone.0056536", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:19:41Z", "type": "Journal Article", "created": "2013-02-20", "title": "Long-Term Effect Of Manure And Fertilizer On Soil Organic Carbon Pools In Dryland Farming In Northwest China", "description": "Open AccessEs imperativo comprender la din\u00e1mica del carbono org\u00e1nico del suelo (COS) afectado por las pr\u00e1cticas agr\u00edcolas para mantener la productividad del suelo y mitigar el calentamiento global. Los objetivos de este estudio fueron investigar los efectos de la fertilizaci\u00f3n a largo plazo en el COS y las fracciones de COS para todo el perfil del suelo (0\u2013100 cm) en el noroeste de China. El estudio se inici\u00f3 en 1979 en Gansu, China, e incluy\u00f3 seis tratamientos: control no fertilizado (CK), fertilizante de nitr\u00f3geno (N), fertilizantes de nitr\u00f3geno y f\u00f3sforo (P) (NP), fertilizantes de paja m\u00e1s N y P (NP+S), esti\u00e9rcol de granja (FYM) y esti\u00e9rcol de granja m\u00e1s fertilizantes de N y P (NP+FYM). Los resultados mostraron que la concentraci\u00f3n de COS en la capa de suelo de 0\u201320 cm aument\u00f3 con el tiempo, excepto en los tratamientos con CK y N. La fertilizaci\u00f3n a largo plazo influy\u00f3 significativamente en las concentraciones de COS y el almacenamiento a 60 cm de profundidad. Por debajo de 60 cm, las concentraciones y almacenamientos de COS no fueron estad\u00edsticamente significativos entre todos los tratamientos. La concentraci\u00f3n de COS a diferentes profundidades en el perfil de suelo de 0\u201360 cm fue mayor bajo NP+FYM seguido por bajo NP+S, en comparaci\u00f3n con bajo CK. El almacenamiento de SOC en 0\u201360 cm en los tratamientos NP+FYM, NP+S, FYM y NP aument\u00f3 en un 41,3%, 32,9%, 28,1% y 17,9%, respectivamente, en comparaci\u00f3n con el tratamiento con CK. El esti\u00e9rcol org\u00e1nico m\u00e1s la aplicaci\u00f3n de fertilizantes inorg\u00e1nicos tambi\u00e9n aumentaron las piscinas de carbono org\u00e1nico del suelo l\u00e1bil en 0\u201360 cm de profundidad. La concentraci\u00f3n promedio de carbono org\u00e1nico particulado (POC), carbono org\u00e1nico disuelto (DOC) y carbono de biomasa microbiana (MBC) en esti\u00e9rcol org\u00e1nico m\u00e1s tratamientos con fertilizantes inorg\u00e1nicos (NP+S y NP+FYM) en 0\u201360 cm de profundidad aument\u00f3 en un 64.9-91.9%, 42.5-56.9% y 74.7\u201399.4%, respectivamente, sobre el tratamiento CK. Las concentraciones de POC, MBC y DOC aumentaron linealmente con el aumento del contenido de SOC. Estos resultados indican que las adiciones a largo plazo de esti\u00e9rcol org\u00e1nico tienen los efectos m\u00e1s beneficiosos en la construcci\u00f3n de dep\u00f3sitos de carbono entre los tipos de fertilizaci\u00f3n investigados.", "keywords": ["Crops", " Agricultural", "China", "Biogeochemical Cycling of Nutrients in Aquatic Ecosystems", "Nitrogen", "Science", "Soil Science", "Organic chemistry", "Environmental science", "Meta-analysis in Ecology and Agriculture Research", "Agricultural and Biological Sciences", "Soil", "Fertilizer", "Soil water", "Environmental Chemistry", "Fertilizers", "Soil Carbon Sequestration", "Biology", "Triticum", "Ecology", " Evolution", " Behavior and Systematics", "Soil science", "2. Zero hunger", "Soil organic matter", "Soil Fertility", "Q", "Total organic carbon", "R", "Soil Chemical Properties", "Life Sciences", "Straw", "Agriculture", "Phosphorus", "04 agricultural and veterinary sciences", "15. Life on land", "Soil carbon", "Carbon", "Agronomy", "6. Clean water", "Manure", "Chemistry", "13. Climate action", "Environmental Science", "Physical Sciences", "Environmental chemistry", "Medicine", "0401 agriculture", " forestry", " and fisheries", "Soil Carbon Dynamics and Nutrient Cycling in Ecosystems", "Animal science", "Research Article"], "contacts": [{"organization": "Enke Liu, Yan Cai, Xurong Mei, Yanqing Zhang, Tingting Fan,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1371/journal.pone.0056536"}, {"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.0056536", "name": "item", "description": "10.1371/journal.pone.0056536", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1371/journal.pone.0056536"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-02-20T00:00:00Z"}}, {"id": "10.1371/journal.pone.0070224", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:19:41Z", "type": "Journal Article", "created": "2013-07-16", "title": "Effects Of Added Organic Matter And Water On Soil Carbon Sequestration In An Arid Region", "description": "Open AccessEn general, se predice que el calentamiento global estimular\u00e1 la producci\u00f3n primaria y conducir\u00e1 a m\u00e1s aportes de carbono (C) al suelo. Sin embargo, muchos estudios han encontrado que el suelo C no necesariamente aumenta con el aumento de la entrada de basura vegetal. Las precipitaciones han aumentado en Asia central \u00e1rida y se prev\u00e9 que aumenten m\u00e1s, por lo que probamos los efectos de la adici\u00f3n de materia org\u00e1nica fresca (FOM) y agua en el secuestro de C del suelo en una regi\u00f3n \u00e1rida en el noroeste de China. Los resultados sugirieron que el FOM a\u00f1adido se descompuso r\u00e1pidamente y tuvo efectos menores en el dep\u00f3sito de carbono org\u00e1nico del suelo (SOC) a una profundidad de 30 cm. Tanto la FOM como la adici\u00f3n de agua tuvieron efectos significativos en la biomasa microbiana del suelo. La biomasa microbiana del suelo aument\u00f3 con la adici\u00f3n de FOM, alcanz\u00f3 un m\u00e1ximo y luego disminuy\u00f3 a medida que la FOM se descompon\u00eda. El FOM tuvo un efecto estimulante m\u00e1s significativo sobre la biomasa microbiana con la adici\u00f3n de agua. Bajo los rangos de humedad del suelo utilizados en este experimento (21.0% -29.7%), el aporte de FOM fue m\u00e1s importante que la adici\u00f3n de agua en el proceso de mineralizaci\u00f3n del suelo C. Concluimos que la entrada de FOM a corto plazo en el suelo subterr\u00e1neo y la adici\u00f3n de agua no afectan la piscina de SOC en los matorrales en una regi\u00f3n \u00e1rida.", "keywords": ["Carbon sequestration", "550", "Arid", "Growth", "630", "Agricultural and Biological Sciences", "Soil", "Agricultural soil science", "Tropical forest", "Soil water", "Carbon fibers", "Biomass", "Land-use", "2. Zero hunger", "Analysis of Land Cover and Ecosystems", "Ecology", "Respiration", "Q", "Temperature", "R", "Soil Chemical Properties", "Life Sciences", "Composite number", "04 agricultural and veterinary sciences", "Soil carbon", "6. Clean water", "Chemistry", "Physical Sciences", "Environmental chemistry", "Medicine", "Organic matter", "Research Article", "Composite material", "Carbon Sequestration", "China", "Desert shrubs", "Science", "Soil Science", "Ecosystems", "Environmental science", "Meta-analysis in Ecology and Agriculture Research", "Organic Matter Dynamics", "Climate-change", "Soil Carbon Sequestration", "Biology", "Ecology", " Evolution", " Behavior and Systematics", "Soil science", "Soil organic matter", "Soil Fertility", "Water", "Soil Properties", "15. Life on land", "Soil biodiversity", "Materials science", "Microbial activity", "Carbon dioxide", "13. Climate action", "FOS: Biological sciences", "Environmental Science", "Fine-root", "0401 agriculture", " forestry", " and fisheries", "Soil Carbon Dynamics and Nutrient Cycling in Ecosystems", "CO2 flux"]}, "links": [{"href": "https://doi.org/10.1371/journal.pone.0070224"}, {"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.0070224", "name": "item", "description": "10.1371/journal.pone.0070224", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1371/journal.pone.0070224"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-07-16T00:00:00Z"}}, {"id": "10.1371/journal.pone.0172767", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:19:43Z", "type": "Journal Article", "created": "2017-03-06", "title": "Effects Of Inorganic And Organic Amendment On Soil Chemical Properties, Enzyme Activities, Microbial Community And Soil Quality In Yellow Clayey Soil", "description": "Open AccessComprender los efectos de los componentes org\u00e1nicos e inorg\u00e1nicos externos sobre la fertilidad y la calidad del suelo es esencial para mejorar los suelos de bajo rendimiento. Realizamos un estudio de campo durante dos temporadas consecutivas de cultivo de arroz para investigar el efecto de la aplicaci\u00f3n de fertilizantes qu\u00edmicos (NPK), NPK m\u00e1s esti\u00e9rcol verde (NPKG), NPK m\u00e1s esti\u00e9rcol de cerdo (NPKM) y NPK m\u00e1s paja (NPKS) en el estado de nutrientes del suelo, las actividades enzim\u00e1ticas involucradas en el ciclo de C, N, P y S, la comunidad microbiana y los rendimientos de arroz del suelo arcilloso amarillo. Los resultados mostraron que los tratamientos fertilizados mejoraron significativamente los rendimientos de arroz durante las tres primeras temporadas experimentales. En comparaci\u00f3n con el tratamiento NPK, las enmiendas org\u00e1nicas produjeron efectos m\u00e1s favorables en la productividad del suelo. En particular, el tratamiento NPKM exhibi\u00f3 los niveles m\u00e1s altos de disponibilidad de nutrientes, carbono de biomasa microbiana (MBC), actividades de la mayor\u00eda de las enzimas y la comunidad microbiana. Esto dio como resultado el \u00edndice de calidad del suelo (SQI) m\u00e1s alto y el rendimiento del arroz, lo que indica una mejor fertilidad y calidad del suelo. Se observaron diferencias significativas en las actividades enzim\u00e1ticas y la comunidad microbiana entre los tratamientos, y el an\u00e1lisis de redundancia mostr\u00f3 que MBC y N disponible fueron los determinantes clave que afectaron las actividades enzim\u00e1ticas del suelo y la comunidad microbiana. La puntuaci\u00f3n de SQI del control no fertilizado (0,72) fue comparable a la de los tratamientos con NPK (0,77), NPKG (0,81) y NPKS (0,79), pero significativamente menor en comparaci\u00f3n con NPKM (0,85). La correlaci\u00f3n significativa entre el rendimiento del arroz y el SQI sugiere que el SQI puede ser \u00fatil para cuantificar los cambios en la calidad del suelo causados por diferentes pr\u00e1cticas de manejo agr\u00edcola. Los resultados indican que la aplicaci\u00f3n de NPK m\u00e1s esti\u00e9rcol de cerdo es la opci\u00f3n preferida para mejorar la acumulaci\u00f3n de COS, mejorar la fertilidad y calidad del suelo y aumentar el rendimiento de arroz en suelos arcillosos amarillos.", "keywords": ["Microbial population biology", "FOS: Political science", "Agricultural and Biological Sciences", "Soil", "Agricultural soil science", "Fertilizer", "Soil water", "Biomass", "Political science", "Soil Microbiology", "2. Zero hunger", "Organic Agriculture", "Soil Physical Properties", "Ecology", "Q", "Soil Quality", "R", "Soil Chemical Properties", "Life Sciences", "Straw", "Agriculture", "04 agricultural and veterinary sciences", "Hydrogen-Ion Concentration", "Soil carbon", "6. Clean water", "Chemistry", "Medicine", "Research Article", "Nitrogen", "Science", "Soil Science", "FOS: Law", "Environment", "Soil fertility", "Soil quality", "Meta-analysis in Ecology and Agriculture Research", "Genetics", "Biology", "Ecology", " Evolution", " Behavior and Systematics", "Soil Fertility", "Effects of Soil Compaction on Crop Production", "Bacteria", "15. Life on land", "Soil biodiversity", "Carbon", "Agronomy", "Manure", "FOS: Biological sciences", "Amendment", "0401 agriculture", " forestry", " and fisheries", "Soil Carbon Dynamics and Nutrient Cycling in Ecosystems", "Law", "Nutrient"], "contacts": [{"organization": "Zhanjun Liu, Qinlei Rong, Wei Zhou, Gaofeng Liang,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1371/journal.pone.0172767"}, {"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.0172767", "name": "item", "description": "10.1371/journal.pone.0172767", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1371/journal.pone.0172767"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-03-06T00:00:00Z"}}, {"id": "10.1890/06-2100.1", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:20:08Z", "type": "Journal Article", "created": "2007-12-11", "title": "Interactive Effects Of Plant Species Diversity And Elevated Co2 On Soil Biota And Nutrient Cycling", "description": "Terrestrial ecosystems consist of mutually dependent producer and decomposer subsystems, but not much is known on how their interactions are modified by plant diversity and elevated atmospheric CO2 concentrations. Factorially manipulating grassland plant species diversity and atmospheric CO2 concentrations for five years, we tested whether high diversity or elevated CO2 sustain larger or more active soil communities, affect soil aggregation, water dynamics, or nutrient cycling, and whether plant diversity and elevated CO2 interact. Nitrogen (N) and phosphorus (P) pools, symbiotic N2 fixation, plant litter quality, soil moisture, soil physical structure, soil nematode, collembola and acari communities, soil microbial biomass and microflora community structure (phospholipid fatty acid [PLFA] profiles), soil enzyme activities, and rates of C fluxes to soils were measured. No increases in soil C fluxes or the biomass, number, or activity of soil organisms were detected at high plant diversity; soil H2O and aggregation remained unaltered. Elevated CO2 affected the ecosystem primarily by improving plant and soil water status by reducing leaf conductance, whereas changes in C cycling appeared to be of subordinate importance. Slowed-down soil drying cycles resulted in lower soil aggregation under elevated CO2. Collembola benefited from extra soil moisture under elevated CO2, whereas other faunal groups did not respond. Diversity effects and interactions with elevated CO2 may have been absent because soil responses were mainly driven by community-level processes such as rates of organic C input and water use; these drivers were not changed by plant diversity manipulations, possibly because our species diversity gradient did not extend below five species and because functional type composition remained unaltered. Our findings demonstrate that global change can affect soil aggregation, and we advocate that soil aggregation should be considered as a dynamic property that may respond to environmental changes and feed back on other ecosystem functions.", "keywords": ["2. Zero hunger", "Ecology", "Evolution", "Nitrogen", "Water", "Phosphorus", "Biodiversity", "04 agricultural and veterinary sciences", "Carbon Dioxide", "Plants", "15. Life on land", "Carbon", "10127 Institute of Evolutionary Biology and Environmental Studies", "Soil", "1105 Ecology", " Evolution", " Behavior and Systematics", "Oxygen Consumption", "Behavior and Systematics", "Species Specificity", "13. Climate action", "570 Life sciences; biology", "590 Animals (Zoology)", "0401 agriculture", " forestry", " and fisheries", "Biomass", "Ecosystem", "Soil Microbiology"]}, "links": [{"href": "https://doi.org/10.1890/06-2100.1"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1890/06-2100.1", "name": "item", "description": "10.1890/06-2100.1", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1890/06-2100.1"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2007-12-01T00:00:00Z"}}, {"id": "10.3389/fevo.2023.1094269", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:20:56Z", "type": "Journal Article", "created": "2023-02-03", "title": "Decomposition rate as an emergent property of optimal microbial foraging", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Decomposition kinetics are fundamental for quantifying carbon and nutrient cycling in terrestrial and aquatic ecosystems. Several theories have been proposed to construct process-based kinetics laws, but most of these theories do not consider that microbial decomposers can adapt to environmental conditions, thereby modulating decomposition. Starting from the assumption that a homogeneous microbial community maximizes its growth rate over the period of decomposition, we formalize decomposition as an optimal control problem where the decomposition rate is a control variable. When maintenance respiration is negligible, we find that the optimal decomposition kinetics scale as the square root of the substrate concentration, resulting in growth kinetics following a Hill function with exponent 1/2 (rather than the Monod growth function). When maintenance respiration is important, optimal decomposition is a more complex function of substrate concentration, which does not decrease to zero as the substrate is depleted. With this optimality-based formulation, a trade-off emerges between microbial carbon-use efficiency (ratio of growth rate over substrate uptake rate) and decomposition rate at the beginning of decomposition. In environments where carbon substrates are easily lost due to abiotic or biotic factors, microbes with higher uptake capacity and lower efficiency are selected, compared to environments where substrates remain available. The proposed optimization framework provides an alternative to purely empirical or process-based formulations for decomposition, allowing exploration of the effects of microbial adaptation on element cycling.</p></article>", "keywords": ["Ekologi", "0301 basic medicine", "0303 health sciences", "microbial model", "Ecology", "Evolution", "Applied Mathematics", "500", "growth-efficiency trade-off", "6. Clean water", "510", "03 medical and health sciences", "13. Climate action", "microbial adaptation", "QH359-425", "decomposition kinetics", "optimization", "Mathematics", "Ecology", " Evolution", " Behavior and Systematics", "QH540-549.5"]}, "links": [{"href": "https://doi.org/10.3389/fevo.2023.1094269"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Frontiers%20in%20Ecology%20and%20Evolution", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3389/fevo.2023.1094269", "name": "item", "description": "10.3389/fevo.2023.1094269", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fevo.2023.1094269"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-02-03T00:00:00Z"}}, {"id": "10.3389/fpls.2022.903661", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:20:59Z", "type": "Journal Article", "created": "2022-06-10", "title": "Diversity and Agronomic Performance of Lupinus mutabilis Germplasm in European and Andean Environments", "description": "<p>The introduction of Lupinus mutabilis (Andean lupin) in Europe will provide a new source of protein and oil for plant-based diets and biomass for bio-based products, while contributing to the improvement of marginal soils. This study evaluates for the first time the phenotypic variability of a large panel of L. mutabilis accessions both in their native environment and over two cropping conditions in Europe (winter crop in the Mediterranean region and summer crop in North-Central Europe), paving the way for the selection of accessions adapted to specific environments. The panel of 225 accessions included both germplasm pools from the Andean region and breeding lines from Europe. Notably, we reported higher grain yield in Mediterranean winter-cropping conditions (18 g/plant) than in the native region (9 g/plant). Instead, North European summer-cropping conditions appear more suitable for biomass production (up to 2 kg/plant). The phenotypic evaluation of 16 agronomical traits revealed significant variation in the panel. Principal component analyses pointed out flowering time, yield, and architecture-related traits as the main factors explaining variation between accessions. The Peruvian material stands out among the top-yielding accessions in Europe, characterized by early lines with high grain yield (e.g., LIB065, LIB072, and LIB155). Bolivian and Ecuadorian materials appear more valuable for the selection of genotypes for Andean conditions and for biomass production in Europe. We also observed that flowering time in the different environments is influenced by temperature accumulation. Within the panel, it is possible to identify both early and late genotypes, characterized by different thermal thresholds (600\uffc2\uffb0C\uffe2\uff80\uff93700\uffc2\uffb0C and 1,000\uffe2\uff80\uff931,200\uffc2\uffb0C GDD, respectively). Indications on top-yielding and early/late accessions, heritability of morpho-physiological traits, and their associations with grain yield are reported and remain largely environmental specific, underlining the importance of selecting useful genetic resources for specific environments. Altogether, these results suggest that the studied panel holds the genetic potential for the adaptation of L. mutabilis to Europe and provide the basis for initiating a breeding program based on exploiting the variation described herein.</p", "keywords": ["Biomass (ecology)", "0301 basic medicine", "Lupin Seeds", "Cropping", "germplasm characterization", "Plant Science", "Crop", "Plant breeding", "SB1-1110", "Evolution and Nutritional Properties of Lupin Seeds", "Agricultural and Biological Sciences", "03 medical and health sciences", "Germplasm", "Biology", "Ecology", " Evolution", " Behavior and Systematics", "2. Zero hunger", "0303 health sciences", "biomass", "Ecology", "grain yield", "Plant culture", "Life Sciences", "Genomics and Breeding of Legume Crops", "Agriculture", "15. Life on land", "Agronomy", "Lupinus", "vegetative development", "Evolution and Ecology of Endophyte-Grass Symbiosis", "Andean lupin", "breeding", "FOS: Biological sciences", "Mediterranean Basin", "Mediterranean climate", "phenotypic diversity"]}, "links": [{"href": "https://doi.org/10.3389/fpls.2022.903661"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Frontiers%20in%20Plant%20Science", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3389/fpls.2022.903661", "name": "item", "description": "10.3389/fpls.2022.903661", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fpls.2022.903661"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-06-10T00:00:00Z"}}, {"id": "10.5061/dryad.51c59zwgj", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:21:39Z", "type": "Dataset", "created": "2024-04-02", "title": "Data from: Evidence for reductions in physical and chemical plant defense traits in island flora", "description": "Open Access# Evidence for Reductions in Physical and Chemical Plant Defense Traits in  Island Flora  [https://doi.org/10.5061/dryad.51c59zwgj](https://doi.org/10.5061/dryad.51c59zwgj) This dataset consists of three primary data sources: (1) Morphological and chemical measurements of leaf traits, collected from five taxonomic pairs of chaparral shrubs (*Ceanothus megacarpus*, *Cercocarpus betuloides*, *Dendromecon rigida/harfordii*, *Heteromeles arbutifolia*, *Prunus ilicifolia*) at three sites on the California Channel Islands (Santa Rosa, Santa Cruz, Santa Catalina) and three sites on the California mainland. (2) Morphological and chemical measurements of the same leaf traits from the same species, but this time measured from plants growing at botanic gardens (3) Morphological, chemical, and biomass data from a common garden experiment with *Stachys bullata*, with genotypes from two islands (Santa Rosa, Santa Cruz) and four mainland locations In addition, our analysis also includes bioclimatic data and local precipitation data accessed from publicly available sources. ## Description of the data and file structure This dataset is organized into two folders: **data_files** and **scripts** --- ***DATA_FILES*** Within the **data_files** folder, there are folders for '**Shrubs**' (corresponding to 1 and 2 above) and '**Stachys**' (corresponding to 3 above). **SHRUBS** The **Shrubs** folder contains one file (**Bowen and Van Vuren Effect Sizes.xlsx**), which summarizes the results from Bowen and Van Vuren (1997 ([https://www.jstor.org/stable/2387407](https://www.jstor.org/stable/2387407), directly as reported in their Tables 2, 3, 4, and 5 in the main text. Variables in this datafile include: 1. Trait - the plant trait that was measured in their study 2. Genus - the taxonomic unit being measured 3. t - the value of the t-statistic from a paired t-test of island vs. mainland samples for a given genus 4. n island - sample size for island plants 5. n mainland - sample size for mainland plants 6. Cohen's D - derived value that expresses insularity effect size for a given measure The **Shrubs** folder also contains four subfolders: **Cyanide**, **Images**, **Mapping**, and **Morphology** The **Cyanide** folder contains two files: 1. **cyanide_calibration.csv** - file containing measurements used to define calibration curve for quantifying evolved HCN from leaf tissue. 1. conc = concentration of potassium cyanide (KCN) standard used in calibration (mg/L) 2. abs = absorbance value returned by VWR V-1200 spectrometer, measured at 510 nm 2. **cyanide_measurements.csv** - file containing measurements of evolved HCN from field and botanic garden leaf tissue. PlantID values are the same as those reported for all other morphological measurements. 'NA' values in this dataset correspond to samples whose absorbance values were outside the range of our calibration curve or that were otherwise not suitable to include in analysis. 1. Age = whether leaf tissue was newly expanded ('young') or mature ('old') 2. Tissue_Mass = amount of frozen tissue used in assay (mg) 3. Dilution 1 = amount of water (mL) into which evolved HCN (in NaOH) was added prior to titration with citric acid. This value is 30 mL for all samples. 4. Dilution 2 = dilution factor. Here, a value of 1 means that 5 mL of citrate buffer was mixed with 5 mL water (1:1 ratio) and used in the subsequent reaction. A value of 10 means that 1 mL of citrate buffer was mixed with 10 mL water (1:10 ratio). 5. Sample Concentration = concentration of HCN in sample (mg/L), calculated using the calibration curve above. Samples with absorbance values above 0.500 were omitted and re-measured at reduced concentration, as this was beyond the concentration limit recommended by the manufacturer instructions. 6. Tissue Concentration = value relating dilution factor and sample mass to sample concentration. Expressed in milligrams of HCN per gram of leaf tissue. The **Images** folder contains all scanned leaf images (n = 626). File names correspond to plant species, plant ID, sampling site, and canopy position (see chaparral_leaf_morphology.csv below for a full description). So, for example, CMEG44_SMM_Upper refers to Ceanothus megacarpus, Plant ID = 44, sampled from the Santa Monica Mountains (SMM), upper canopy. Note also that each leaf within each image is individually numbered. The **Mapping** folder contains two files: 1. **shrubs_coordinates.csv** - contains coordinates and elevation for all field-sampled plants, recorded using a handheld Garmin GPS unit 2. **site_coordinates.csv** - contains broad site-level coordinates used for making map in Figure 1 The **Morphology** folder contains two files: 1. **chaparral_leaf_morphology.csv** - the primary datafile for this study, with each row (n = 5665) corresponding to a single leaf. For a visual depiction of the measurement protocol, see Supplemental Figures. Leaf measurements reported as NA generally correspond to leaves that were severely damaged, from which measurements could be reliably taken. 1. Index = sorting variable 2. IM = refers to whether a given plant was growing at an island or mainland site 3. Source = the original provenance of a given plant. For all field-sampled plants, the value here is the same as the value for 'Site' 4. Site = the location where plants were sampled. Includes all field sampling locations as well as the two botanic gardens 5. Exclosure = yes/no variable, only relevant to Catalina Island, describing whether sampled plant was inside of a deer exclosure 6. Species = taxon being measured 7. Plant = Plant ID, a unique value for each individual plant. Note that botanic garden samples have their own non-integer codes, and for Rancho Santa Ana Botanic Garden, these codes can be cross-referenced against the garden's living collections 8. Position = refers to whether a sampled branch came from the upper (&gt;2m) or lower portion of the plant's canopy 9. Aspect = recorded from the Garmin GPS, refers to predominant downward slope direction. Not recorded for botanic garden plants (marked as NA) or for plants from completely flat ground. 10. Elevation = elevation in meters of sampled plants 11. Diameter1 = diameter (cm) of the primary plant trunk at 0.25m (NA means that stem could not be reliably measured) 12. Diameter2 = diameter (cm) of any secondary plant trunk at 0.25m (only applicable for multi-stemmed plants; NA means that stem could not be reliably measured) 13. Stem_Area = derived measure of stem area (cm^2), based on trunk diameter, used as a rough proxy for plant age (NA means that stem could not be reliably measured) 14. 1st_year = refers to whether an individual leaf was newly emerged growth (1) or fully expanded and mature (0) 15. Leaf_ID = corresponds to the numbers in each leaf scan; identifies each individual leaf from a given branch 16. Leaf_Length = leaf length (cm) along its primary axis, excluding the petiole 17. Leaf_Area_petiole = leaf area (cm^2), including the petiole 18. Leaf_Area_no.petiole = leaf area (cm^2), excluding the petiole 19. Internal_area_correction = cumulative area of any 'holes' missing within the leaf perimeter (cm^2) 20. True_area = Leaf_Area_no.petiole minus Internal_area_correction (cm^2) 21. Leaf_area_corrected = leaf area, after manually filling in gaps missing due to presumed herbivore damage (cm^2) 22. Leaf_area_corrected_final = Leaf_area_corrected minus Internal_area_correction (cm^2) 23. Area_no_spines = leaf area after connecting vertices created by leaf spines (cm^2), using to calculate spinescence (%) 2. **shrub_leaf_masses.csv** - cumulative mass (g) of fully expanded leaf tissue from each branch, summed across all individual leaves. Used for calculating specific leaf area (SLA). **STACHYS** The **Stachys** folder contains three subfolders: **Chemistry**, **Morphology**, and **Setup** The **Chemistry** folder contains two files and one sub-directory: 1. **stachys_chromatograms** contains raw GC-MS readout for six leaf chemistry samples. Within each of the corresponding subfolders, the tic_front.csv file was used to generate the chromatograms shown in Figure 6A. 2. **stachys_compound_list.csv** is the full list of compounds detected in our samples. RT refers to the retention time (in minutes) of each compound. Identifications are putative. 3. **stachys_leaf_vocs.csv** is the full data matrix of leaf volatile compounds, with each sample as its own row and data columns each corresponding to a single compound. Values in this data matrix correspond to integrated peak areas, which are a proxy for the abundance of each compound. The **Morphology** folder contains two files: 1. **Anet-stbu.xlsx** contains gas exchange measurements for 26 plants measured in the common garden. The gas exchange column is net carbon assimilation, expressed as CO2 uptake per unit time per unit leaf area (\u00b5mol of CO2 m-2 s-1). 2. **sla_sbbg.csv** contains specific leaf area measurements for *Stachys* plants in the common garden. Note that plant #54 had died by the time of data collection, hence its values of NA across all columns. 1. ID = individual plant ID 2. SLA = cumulative area/ cumulative mass (cm^2/g) 3. leaves = refers to the number of leaves used for generating SLA measurement 4. area/leaf = cumulative area/ leaf number (cm^2/leaf) The **Setup** folder contains three files: 1. **321dailys.xls** is a file containing annual precipitation records (inches) for the Santa Barbara Botanic Garden, accessed from: [https://www.countyofsb.org/2328/Daily-Rainfall-Data-XLS](https://www.countyofsb.org/2328/Daily-Rainfall-Data-XLS) 2. **Field_Setup_SBBG.csv** is the primary file containing details on the primary garden experiment. Note that samples with masses recorded as NA were either dead at the time of sampling. Plants grown on Santa Cruz Island have values of NA for row and column, as this common garden was not arranged in a grid. 1. Index = individual plant ID 2. Population = provenance of plant 3. Garden = whether plants were grown at the Santa Barbara Botanic Garden (primary common garden site) or at the field station on Santa Cruz Island (secondary garden location with only Santa Cruz genotypes) 4. Genotype = identifier given to field-collected rhizomes, which were then propagated and split prior to planting out 5. Cumulative_Mass = mass (g) of paper bag and all of its contents, used for measuring end-of-season plant aboveground biomass 6. Bag_Mass = mass (g) of bag itself (without its contents) 7. Inside_Bag_Mass = mass (g) of smaller paper bags contained within larger bags, including all of their contents. Though not analyzed, these inside bags included all plant biomass collected from outside of the gopher cage that plants were growing in. 8. Inside_Bag_Only_Mass = as above, mass (g) of inner bag itself (without its contents) 9. Year = whether biomass was collected in 2016 or 2017 10. Row = grid location within common garden. Row 1 was at the bottom of the slope shown in Figure 2. 11. Column = grid location within common garden. 3. **stachys_coordinates.csv** contains coordinates for the six collecting sites, used to make the map in Figure 2. --- ***SCRIPTS*** All analyses for this project were conducted in the R programming language (version 4.1.3). Scripts used for analysis are arranged in two folders: **Shrubs** and **Stachys** The **Shrubs** folder contains the following scripts: 1. **coordinates_shrubs_stachys.R** - script used for generating all maps, including those in Figures 1 and 2 and the Google Earth maps in the supplementary figures 2. **cyanide_calibration.R** - script for plotting the calibration curve for relating evolved absorbance values to evolved HCN 3. **shrub_leaf_morphology_chemistry.R** - primary analysis script for manuscript, containing all major statistical analyses and plotting 4. **shrubs_BioClim.R** - script used for extracting bioclimatic data for field-sampled plants; containing code generating climate figures shown in supplementary materials The **Stachys** folder contains the following scripts: 1. **sbbg_precip_data.R** - very short script for summarizing water year totals for 2017 at the Santa Barbara Botanic Garden 2. **stachys_analysis.R** - primary script for generating all analyses and figures for *Stachys* common garden data 3. **stbu_gas_exchange.R** - script for analyzing gas exchange in common garden *Stachys* Note that for recreating some analyses and figures, users will need a Google Maps API key and will need to download data from the bioclim database. --- ## Sharing/Access information Data, code, and figures associated with this project are also available on GitHub at the following link: [https://github.com/micahfreedman/manuscripts/tree/master/Island_Mainland](https://github.com/micahfreedman/manuscripts/tree/master/Island_Mainland)", "keywords": ["Islands", "Morphology", "Dendromecon", "cyanogenic glycosides", "Ecology", "Terpenes", "Cercocarpus", "California Channel Islands", "Chemical ecology", "marginal spines", "Specific leaf area", "Plant science", "Heteromeles", "FOS: Biological sciences", "Stachys", "Other", "Prunus", "Herbivory", "Plant defenses", "Plant-herbivore interactions", "Ceanothus", "Ecology", " Evolution", " Behavior and Systematics"], "contacts": [{"organization": "Freedman, Micah", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5061/dryad.51c59zwgj"}, {"rel": "self", "type": "application/geo+json", "title": "10.5061/dryad.51c59zwgj", "name": "item", "description": "10.5061/dryad.51c59zwgj", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5061/dryad.51c59zwgj"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-01-01T00:00:00Z"}}, {"id": "10.5194/bg-14-1969-2017", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:21:53Z", "type": "Journal Article", "created": "2016-11-28", "title": "Modelling sun-induced fluorescence and photosynthesis with a land surface model at local and regional scales in northern Europe", "description": "<p>Abstract. Recent satellite observations of sun-induced chlorophyll fluorescence (SIF) are thought to provide a large-scale proxy for gross primary production (GPP), thus providing a new way to assess the performance of land surface models (LSMs). In this study, we assessed how well SIF is able to predict GPP in the Fenno-Scandinavian region and what potential limitations for its application exist. We implemented a SIF model into the JSBACH LSM and used active leaf level chlorophyll fluorescence measurements (ChlF) to evaluate the performance of the SIF module at a coniferous forest at Hyyti\uffc3\uffa4l\uffc3\uffa4, Finland. We also compared simulated GPP and SIF at four Finnish micrometeorological flux measurement sites to observed GPP as well as to satellite observed SIF. Finally, we conducted a regional model simulation for the Fenno-Scandinavian region with JSBACH and compared the results to SIF retrievals from the GOME-2 (Global Ozone Monitoring Experiment-2) space-borne spectrometer and to observation-based regional GPP estimates. Both observations and simulations revealed that SIF can be used to estimate GPP at both site and regional scales. The GOME-2 based SIF was a better proxy for GPP than the remotely sensed fAPAR (fraction of absorbed photosynthetic active radiation by vegetation), even though high SIF values occurred during early spring at the northern latitudes, although these are not likely to be associated with photosynthesis.                         </p>", "keywords": ["EDDY COVARIANCE", "DATA ASSIMILATION SYSTEM", "FLUX MEASUREMENTS", "SCOTS PINE FOREST", "01 natural sciences", "7. Clean energy", "Ecology", " Evolution", " Behavior and Systematics; Earth-Surface Processes", "CO2 EXCHANGE", "PHOTOSYSTEM-II", "Life", "QH501-531", "QH540-549.5", "SDG 15 - Life on Land", "0105 earth and related environmental sciences", "QE1-996.5", "Ecology", "BOREAL CONIFEROUS FOREST", "BIOCHEMICAL-MODEL", "Forestry", "Geology", "15. Life on land", "TERRESTRIAL CHLOROPHYLL FLUORESCENCE", "Physical sciences", "Environmental sciences", "13. Climate action", "ITC-ISI-JOURNAL-ARTICLE", "ENERGY-BALANCE", "ITC-GOLD"]}, "links": [{"href": "https://cris.unibo.it/bitstream/11585/585578/2/bg-14-1969-2017.pdf"}, {"href": "https://bg.copernicus.org/articles/14/1969/2017/bg-14-1969-2017.pdf"}, {"href": "https://doi.org/10.5194/bg-14-1969-2017"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Biogeosciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.5194/bg-14-1969-2017", "name": "item", "description": "10.5194/bg-14-1969-2017", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5194/bg-14-1969-2017"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2016-11-28T00:00:00Z"}}, {"id": "10.5061/dryad.9ghx3ffpz", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:21:41Z", "type": "Dataset", "created": "2023-10-24", "title": "The functional significance of tree species diversity in European forests - the FunDivEUROPE dataset", "description": "unspecifiedGeneral design  The FunDivEUROPE project,  short for 'Functional Significance of Forest Biodiversity in  Europe,' aimed at exploring the intricate relationships between  forest biodiversity and ecosystem functioning, focusing specifically on  European forests (Baeten et al., 2019; Baeten et al., 2013; Ratcliffe et  al., 2017; van der Plas et al., 2016a; van der Plas et al., 2016b; van der  Plas et al., 2018). In total, 209 mature forest plots measuring 30 x 30  meters were located in six European countries, ranging from boreal to  Mediterranean zones, and with each representing a major European forest  type: Finland (28 plots, boreal forest), Poland (43 plots, hemiboreal  forest), Germany (38 plots, temperate deciduous forest), Romania (28  plots, mountainous deciduous forest), Italy (36 plots, thermophilous  deciduous forest), and Spain (36 plots, Mediterranean mixed forest). These  plots were primarily established to investigate the role of the richness  of regionally common and economically important \u2018target\u2019 species on  ecosystem functioning and were hence selected to differ as much as  possible in the richness of these. Plot selection was aimed at mimicking  the design of a biodiversity experiment, in which variation in environment  is minimized and diversity is not confounded with composition, as in most  observational studies of diversity. Hence, plots were carefully selected  so that correlations between tree species richness and community  composition, topography (slope, altitude), and potentially confounding  soil factors (texture, depth, pH) were minimized, thus ensuring robust  tests of diversity-ecosystem function relationships (comparative study  design). Most forest plots were historically used for timber production  but are now managed by low-frequency thinning or with minimal  intervention. Hence, species compositions and diversity patterns in  forests are predominantly management-driven and/or are the result of  random species assembly, from the regional species pool. All sites are  considered as mature forests. In total, there were 15 target  species across all 209 plots, and plots were selected so that almost all  possible combinations of these target species were realized. Target  species contributed to more than 90% of the tree biomass in the plots and  therefore we expected them to be most important for ecosystem functioning.  Richness levels of one, two, three, four, and five target species were  replicated 56, 67, 54, 29, and 3 times, respectively, across countries,  and most possible target species compositions were realized. For the  majority of species combinations, we included two or more \u201crealizations\u201d  (not strict replicates, because species abundances differ), which allows  for comparing the importance of species diversity with that of species  composition for this subset of plots. At each richness level, each target  tree species was present in at least one plot, allowing us to  statistically test for the effects of presence/absence of species on  ecosystem functioning. Since species evenness might also affect ecosystem  functioning, all plots were selected to have target species with similar  abundances (with Pielou\u2019s evenness values above 0.6 in &gt; 91% of the  plots). To reach this goal, we <em>a priori</em> decided to  exclude locally rare target species (&lt;2 individuals per plot) in  richness measures. To describe community composition and to estimate  biomass values of each tree in each plot, we identified all stems \u22657.5 cm  in diameter to species and permanently marked them (12,939 stems in  total). More details about the design of the FunDivEUROPE plot network can  be found in Baeten et al. (2013). We determined a high number of basic  data for each of the 209 plots, describing geographic and  geomorphological, as well as soil and bedrock characteristics, see also  Ratcliffe et al (2017). Soil pH was determined in the same samples used  for C and N determination (see below) with a 0.01M  CaCl<sub>2</sub> solution at a ratio of 1:2.5 using a 827 pH  labs Metrohm AG, Herisau, Switzerland; see details in Dawud et al. (2017).  For each plot, we extracted mean annual temperature, temperature  seasonality (standard deviation of mean monthly temperatures), annual  precipitation, and precipitation seasonality (standard deviation of mean  monthly precipitation) from the WorldClim dataset (interpolated from  measurements taken between 1960 and to 1990 and at a spatial resolution of  one square kilometer) and the slope from the GTOPO30\u2014digital elevation  model with a spatial resolution of one square kilometer (data available  from the U.S. Geological Survey); see details in Kambach et al. (2019). We  further quantified several measures of tree diversity, based on the  initial inventory made in each plot, see Baeten et al. (2013). Short  description of all these variables are available in the \u201cMetadata\u201d sheet  of the data file. Ecosystem functions  methodology A major strength of the FunDivEUROPE  project was the general philosophy to measure all ecosystem functions in  all plots, following the same protocol by the same observers across the  six forest types. Measurements are thus directly comparable across plots  and show high coverage. In each of the 209 plots, 27  ecosystem functions were measured. The functions were <em>a  priori</em> classified into six groups reflecting basic ecological  processes (groups 1 to 5 below), and which have established links to  supporting, provisioning, regulating, or cultural ecosystem services.  These functions were also used in Chao et al. (in press): Hill-Chao  numbers allow decomposing gamma-multifunctionality into alpha and beta  components. Ecology Letters. In addition, we quantified timber quality as  an additional ecosystem service. \u00a0 In the  following, we describe the methodology for each measured ecosystem  function/service. (For more details, see also Baeten et al., 2019;  Ratcliffe et al., 2017; van der Plas et al., 2016a; van der Plas et al.,  2016b; van der Plas et al., 2018), and other FunDivEUROPE publications  that focus on specific ecosystem properties and functions. Additional  datasets are stored in the FunDivEUROPE data portal  (https://data.botanik.uni-halle.de/fundiveurope/, logon required to view  most data; all metadata is publicly available). 1.  Nutrient and carbon cycling-related drivers (header in the data table in  parentheses): a.\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0 Earthworm biomass: \u00a0Biomass of all earthworms [g m<sup>-2</sup>] (earthworm_biomass) Earthworm sampling was carried out in spring 2012 in Italy, Germany, and Finland, and in autumn 2012 in Poland, Romania, and Spain. Plots were divided in nine (10 x 10) m subplots. One sample per plot was taken in the center subplot. Sampling close to tree stems was avoided and whenever possible performed, in between multiple, different tree species. At each sampling point, earthworms were sampled by means of a combined method. First litter was handsorted over an area of (25 x 25) cm<sup>2</sup>. After litter removal over an enlarged area of 0.5 m\u00b2, ethological extraction using a mustard suspension was applied. Finally, hand sorting of a soil sample of (25 \u00d7 25) cm<sup>2</sup> and 20 cm depth was performed in the middle of the 0.5 m\u00b2 area. Earthworms were preserved in ethanol (70%) for two weeks, and transferred to a 5% formaldehyde solution for fixation (until constant weight), after which they were transferred to ethanol (70%) again for further preservation and identification. All worms were individually weighed, including gut content, and identified to species level. \u00a0Results per unit area of the three sampling techniques were summed to determine the total earthworm biomass per m\u00b2. For details on earthworm biomass measurements, we refer to De Wandeler et al. (2018; 2016). b.\u00a0\u00a0\u00a0\u00a0\u00a0 Fine woody debris: Number of snags and standing dead trees shorter than 1.3 m and thinner than 5 cm DBH, and all stumps and other dead wood pieces lying on the forest floor (fine_woody_debris) Fine woody debris (FWD) was measured in two circular subplots (radius of 7 m) located in the opposite corners of each plot. All standing dead trees thinner than 5 cm diameter at breast height and snags shorter than 1.3 m, and all stumps and other dead wood pieces lying on the forest floor, were surveyed. In this study, we used the number of FWD pieces in each plot. c.\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0 Microbial biomass: Mineral soil (0\u20135cm layer) microbial biomass carbon [mg C kg<sup>-1</sup>] (microbial_biomass_mineral) For soil sampling, each of the 209 plots was divided into nine 10x10m subplots. A soil sample was taken from five of the nine subplots and mixed to obtain one representative composite sample from each plot. Forest floor and mineral soil horizons (0-5 cm) were sampled separately. Soils were sieved fresh (4mm), stored at 4\u00b0C and analyzed within two weeks. Sampling was performed in spring 2012 in Italy, Germany, and Finland, and in autumn 2012 in Poland, Romania, and Spain. No forest floor was collected from the plots in Germany. Soil microbial biomass C was determined by the chloroform fumigation extraction method, of 10g and 15g (organic and mineral soil, respectively) soil, followed by 0.5 M K<sub>2</sub>SO<sub>4</sub> extraction of both fumigated and unfumigated soils (soil:solution ratio, 1:5). Fumigations were carried out for three days in vacuum desiccators with alcohol-free chloroform. Extracts were filtered (Whatman n\u00b0 42), and dissolved organic carbon in fumigated and unfumigated extracts was measured with a Total Organic Carbon analyser (Labtoc, Pollution and Process Monitoring Limited, UK). Soil microbial biomass C was calculated by dividing the difference of total extract between fumigated and unfumigated samples with a kEC (extractable part of microbial biomass C after fumigation) of 0.45 for biomass C (Joergensen and Mueller, 1996). d.\u00a0\u00a0\u00a0\u00a0\u00a0 Soil carbon stocks: \u00a0Total soil carbon stock in forest floor and 0\u201310 cm mineral soil layer combined [Mg ha<sup>-1</sup>] (soil_c_ff_10) Soil sampling was carried out from May 2012 to October 2012 (i.e. Poland in May 2012, Spain in June 2012, Finland and Germany in August 2012, Romania in September 2012 and Italy in October 2012). Nine forest floor samples and nine cores of mineral soil were collected from each plot and these were subsequently pooled into one sample per plot by each soil layer, i.e. forest floor, 0\u201310cm and 10\u201320cm depths for samples from Germany, Finland, Italy, and Romania. For Poland, the fixed depth was extended to 20\u201330cm and 30\u201340 cm whereas for Spain it was only possible to sample up to the 0\u201310cm layer due to the stoniness of the site. We oven-dried the samples at 55\u00b0C to constant weight, sorted out stones and other materials, ground the forest floor first with a heavy-duty SM 2000-Retsch cutting mill, and we then took subsamples and ground it further into finer particles with a planetary ball mill (PM 400-Retsch) for six minutes at 280rpm. The mineral soil samples were sieved through 2mm diameter mesh. We carried out carbonate removal treatments for those soil samples whose pH value exceeded the threshold point and proved presence of carbonates when tested with a 4N HCl fizz test. We used 6% (w/v) H<sub>2</sub>SO<sub>3</sub> solution and followed the carbonate removal procedure described by\u00a0(Skjemstad and Baldock, 2007). We took subsamples and further ground it into finer particles with a planetary ball mill (PM 400-Retsch) for six minutes at 280 rpm before analyzing soil organic carbon (SOC) with a Thermo Scientific FLASH 2000 soil CN analyzer. Soil organic C stocks were estimated by multiplying the SOC concentrations with soil bulk density, relative root volume and relative stone volume using the formula described in Vesterdal et al., (2008). We also determined the moisture content of the soil samples by oven-dried subsamples at 105\u00b0C and the reported SOC stock is thus on 105\u00b0C dry weight basis.\u00a0 2. Nutrient cycling related processes a.\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0 Litter decomposition: Decomposition of leaf litter using the litterbag methodology [% daily rate] (litter_decomp_day) Litter collection and litterbag construction Leaf litter from all target tree species of the cross-region exploratory platform was collected at tree species-specific peak leaf litter fall between October 2011 and November 2012. Except for the Finnish forests, where freshly fallen leaf litter was collected from the forest floor, litter was collected using suspended litter traps, which were regularly harvested at one to two-week intervals. In all cases, litter was collected nearby, but not within the experimental plots. Litter was then air-dried and stored until the preparation of the litterbags. Litterbags (15 x 15 cm) were constructed using polyethylene fabrics of two different mesh sizes. For the bottom side of the litterbags, we used a small mesh width of 0.5 x 0.5 mm in order to minimize losses of litter fragments, while for the upper side, we used a large mesh width of 5 x 8 mm to allow soil macrofauna access to the litter within bags. Litterbags were filled with 10 g of litter. For litter mixtures, litterbags were filled with equivalent proportion of each litter species. Subsamples of all litter species were weighed, dried at 65\u00b0C for 48 h and reweighed to get a 65\u00b0C dry mass correction factor. Litterbag incubation Within each experimental plot, three litterbags with the plot-specific litter type (either single litter species or specific mixtures) were placed on bare soil after the natural litter layer had been removed, and fixed to the soil by placing chicken wire on top of it. The litterbags were removed from the field when 50\u201360% of the initial litter mass of the region\u2019s fastest decomposing species was remaining (evaluated with an extra set of litterbags that were harvested regularly). As a consequence, the duration of litter decomposition varied among regions. This procedure ensured that litter was sampled at similar decomposition stages across all sites, facilitating meaningful comparisons of litter diversity effects. Litter processing Harvested litterbags were sent to Montpellier where they were dried at 65\u00b0C. Litter was cleaned of pieces of wood, stones or other foreign material that occasionally got into the litterbags. Litter was then weighed, ground to a particle size of 1 mm with a Cyclotec Sample Mill (Tecator, H\u00f6gan\u00e4s, Sweden). To correct for potential soil contamination during decomposition in the field, we determined the ash content of initial and final litter material on all samples and expressed litter mass loss on ash-free litter mass.\u00a0 Litter mass loss was expressed as the percentage of mass lost from each litterbag, calculated as followed: Mass Loss = 100 x (Initial (ash free) mass \u2013 Final (ash free) mass)/Initial (ash free) mass. For details on litter decomposition measurements, we refer to Joly et al. (2017; 2023). b.\u00a0\u00a0\u00a0\u00a0\u00a0 Nitrogen resorption efficiency: Difference in N content between green and senescent leaves divided by N content of green leaves [%] (nutrient_resorption_efficiency) In each plot, fresh leaf and needle samples were collected from the south-exposed sun crown of all dominant tree species during the growing season (June to August) of 2012 and 2013. Twigs with leaves and needles were cut down from six trees per species in the monocultures and from three trees per species in the mixtures. Depending on the local conditions, tree loppers, tree climbers, or ruffles were used for this purpose. The selected material was placed in paper bags and was either oven-dried or air-dried, depending on the facilities available. Furthermore, collection of leaves from the litter traps, as representative of senescent leaves, has been conducted at periods of maximum litterfall during 2012 and 2013. For this purpose, five litter traps per plot were established and the collected litter was separated into the different species it originated from (see \u201cLitter production\u201d below). All samples were ground and analysed for nitrogen and calcium content by means of Near Infra Red Spectroscopy (NIRS) as described in detail by Pollastrini et al. (2016a). For the calibration of the NIRS spectra for the Ca analysis, a subset of samples was analysed with an atom absorption spectrometer (AAS, iCE 3000 series, ThermoScientific, China). Nitrogen resorption efficiency was calculated as follows, taking into account the N content of green and senescent leaves: NRE(%) = 100 x ((N green leaves - N senescent leaves)/(N green leaves)) Furthermore, the estimated NRE was corrected in order to take into account the leaf mass loss occurring during senescence. Thus, NRE was corrected based on the Ca foliar concentration, since Ca is rather immobile and is not resorbed during senescence (Van Heerwaarden et al., 2003). To validate the correction of NRE based on Ca concentrations, the Mass Loss Correction Factors (MLCF) suggested by Vergutz et al. (2012) have also been used. c.\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0 Soil C/N ratio: Soil C/N ratio in forest floor and 0\u201310 cm mineral soil layer combined (soil_cn_ff_10) Soil sampling was carried out between May 2012 and October 2012 in all the regions.\u00a0Nine forest floor samples were collected using a 25 x 25 cm wooden frame, and the mineral soil (0-10 cm layer) was sampled, after forest floor removal, using a cylindrical metal corer. Total soil carbon and nitrogen concentrations were measured with a Thermo Scientific FLASH 2000 soil CN analyser on the forest floor and 0-10 cm layer samples. For full details on soil carbon and nitrogen methodology see Dawud et al. (2017). d.\u00a0\u00a0\u00a0\u00a0\u00a0 Wood decomposition: Decomposition of flat wooden sticks placed on forest floor [% daily rate] (wood_decomp_day) Flat wooden sticks (wooden tongue depressors made of <em>Betula pendula</em> wood) were placed to decompose at each plot of the exploratory platform. Each wooden stick was initially weighed (average of 2.5 g). As the weighing was done on air-dry sticks, subsamples were weighed, dried at 65\u00b0C for 48 h and reweighed to get a 65\u00b0C dry mass correction factor. Within each plot, three wooden sticks were placed on the bare soil after the natural litter layer had been locally removed, and fixed to the soil by placing chicken wire on top of it. The wooden sticks stayed in the field for different durations among regions depending on the mass loss of the region\u2019s fastest decomposing litter species (target of 50 to 60 % mass remaining), that was placed in the field at the same time as the wooden sticks.\u00a0 After field exposure wooden sticks were harvested, dried at 65\u00b0C, and weighed. Mass loss of wooden sticks was expressed as the percentage of initial mass lost, calculated as followed: Mass Loss = 100 x (Initial mass \u2013 Final mass)/Initial mass. For details on wood decomposition measurements, we refer to Joly et al. (2017; 2023). 3. Primary production a.\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0 Fine root biomass: Total biomass of living fine roots in forest floor and 0-10 mineral soil layer combined [g m<sup>-2</sup>] (root_biomass) On each plot for determining fine root biomass, nine soil samples were taken from a predefined grid. The sampling was done in the six countries during May-October 2012. The forest floor was sampled using a wooden frame of size 25 cm x 25 cm, and thereafter the mineral soil was sampled using a cylindrical metal corer with 36 mm of inside diameter. The mineral soil was sampled down to 20 cm, except for the plots in Poland (down to 40 cm) and in Spain (down to 10 cm). Samples were pooled by layer and plot into one sample. Living fine roots (diameter \u2264 2 mm) were separated from the soil samples by hand to two categories, tree roots and ground vegetation roots. After separation, the roots were washed with water to remove adhering soil. Subsequently, the roots were dried at 40\u00b0C until constant mass and weighed for biomass. The root biomass was corrected with a correction factor for soil stoniness (CFstones= 100-(% stones)/100), where the respective volumetric stoniness was estimated with the metal rod method (Tamminen and Starr, 1994) on each plot. For this study, total tree fine root biomass for each plot was calculated (g m<sup>-2</sup>) for the sampled soil layer (forest floor + sampled mineral soil). For further details, see also Fin\u00e9r et al. (2017). b.\u00a0\u00a0\u00a0\u00a0\u00a0 Leaf mass: Leaf Area Index (lai) As a proxy for the leaf mass of each plot, we used the Leaf Area Index (LAI), which is the projected leaf area per unit of ground area. Five measurements of LAI in each plot were carried out at two time points, either early in the morning (shortly before sunrise) or late in the evening (shortly after sunset) in order to work in the presence of diffuse solar radiation and thus reduce the effect of scattered blue light in the canopy. LAI measurements were carried out in early September 2012, before the beginning of leaf shedding, using a Plant Canopy Analyzer LAI-2000 (LI-Cor Inc., Nebraska). With the LAI-2000, the incident light above the canopy and the light transmission below the canopy were measured using one sensor with five fisheye light sensors (lenses), with central zenith angle of 7\u00b0,23\u00b0, 38\u00b0, 53\u00b0 and 68\u00b0 (LAI-2000 manual, Li-Cor). The protocol used in each plot consisted of five measurements within the plots (light transmission below the canopy), and five measurements outside the forest (as proxy of the light incidence above the canopy), in an open space that was in close proximity of the sampled plots. LAI data were processed using Li-Cor\u2019s FV2200 software (LI-COR Biogeosciences, Inc. 2010). The light transmittance measurements of the fifth ring were removed to minimise the boundary effects on LAI. The LAI value per plot was the mean value of the five measurements for each plot. \u00a0For full details of the LAI measurement, see Pollastrini et al., (2016a) c.\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0 Litter production: Annual production of foliar litter dry mass [g] (leaf_litter_production) In each of the 209 plots, five geodetic litter traps of 0.5m\u00b2 collection surface were installed in a regular grid. The sampling period covered a whole year and litters were collected several times. Sampling frequency was irregular and depended on working capacity within a region and seasonality of litter production. The litter was pooled per plot, and stored in plastic bags for transportation from the field site to the local laboratories. After air-drying, litter samples were sorted by species and by different fractions for dry weighing and chemical analysis. The following fractions were used: foliar litter (leaves or needles), woody litter (twigs, branches, bark parts), reproductive litter (flowers, cones, fruits, seeds, fruit capsules, etc.), other (e.g. bud scales, indefinable or small parts). Here, only the foliar litter is reported. A subsample of all litter types per species and region was dried at 65\u00b0C to constant weight to determine the conversion factor from air-dried to oven-dried values of litter dry mass (g). d.\u00a0\u00a0\u00a0\u00a0\u00a0 Photosynthetic efficiency: Chlorophyll fluorescence methodology [ChlF] (photo_eff_tot) Photosynthetic efficiency was measured using chlorophyll fluorescence (ChlF). ChlF measurements were replicated on eight randomly chosen leaves per tree from both the top and the bottom of the crown. The measurements were done on the twigs after the dark adaptation (i.e. after a minimum of 4 hours in a black plastic bag, at ambient temperature). In evergreen conifers, chlorophyll fluorescence measurements were taken in the current year\u2019s needles (i.e. needles sprouted in 2012). For full details of the ChlF measurement see Pollastrini et al. (2016b). e.\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0 Tree productivity: Annual aboveground wood production [Mg C ha<sup>-1</sup> yr<sup>-1</sup>] (tree_growth) Wood cores Tree ring data were used to reconstruct the past annually resolved wood production. Between March and October of 2012, bark-to-pith increment cores (5 mm in diameter) were collected for a subset of trees in each plot following a size-stratified random sampling approach (Jucker et al., 2014a). We cored 12 trees per plot in monocultures and six trees per species in mixtures (except in Poland, where only five cores per species were taken in all plots due to restrictions imposed by park authorities), for a total of 3138 cored trees. Short of coring all trees within a stand, this approach has been shown to provide the most reliable estimates of plot-level productivity when using tree ring data, as it ensured that the size distribution of each plot is adequately represented by the subsample. Wood cores were stored in polycarbonate sheeting and allowed to air dry before being mounted on wooden boards and sanded with progressively finer grit sizes. A high-resolution flatbed scanner (2400 dpi optical resolution) was then used to image the cores. \u00a0From tree rings to aboveground wood production We followed a four-step approach (i\u2013iv) to estimate temporal trends in aboveground wood production (AWP, in MgC ha<sup>-1</sup> yr<sup>-1</sup>) from tree ring data (Jucker et al., 2014a). i.\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0 Measuring growth increments from wood cores We measured yearly radial growth increments (mm yr<sup>-1</sup>) for each cored tree from the scanned images. To minimize measurement errors associated with incorrectly placed ring boundaries, we crossdated each sample against a species-level reference curve obtained by averaging all ring-width chronologies belonging to a given species from a given site. In this process, 188 cores which showed poor agreement with reference curves were excluded from further analysis, giving a final total of 2950 tree ring chronologies. Both radial growth measurements and crossdating were performed using CDendro (Cybis Elektronik &amp; Data, Saltsj\u00f6baden, Sweden). Here we report data from the five-year period between 2007 and 2011. ii. Converting diameter increments into biomass growth We combined radial increments and allometric functions to express the growth rate of individual trees in units of biomass. We calculated the average yearly biomass growth between 2007\u20132011 (G, kgC yr<sup>-1</sup>) of cored trees as G = (AGBt<sub>2</sub> \u2013 AGBt<sub>1</sub>)/ \u0394t, where AGBt<sub>2</sub> is the tree\u2019s biomass, estimated with equations presented in Jucker et al. (2014b) in the most recent time period (i.e., end of 2011) and AGBt<sub>1</sub> is its biomass at the previous time step (i.e., end of 2006), \u0394t and is the elapsed time (i.e., five years). AGBt<sub>1</sub> was estimated by replacing current diameter and height measurements used to fit biomass equations with past values. Past diameters were reconstructed directly from wood core samples by progressively subtracting each year\u2019s diameter increment. Height growth was estimated by using height-diameter functions to predict the past height of a tree based on its past diameter. iii. Modelling individual tree biomass growth We modelled the biomass growth of each species as a function of tree size, competition for light, species richness, and a random plot effect: log(G<sub>i</sub>) = \u03b1<sub>j[i]</sub> + \u03b2<sub>1</sub> x log(D<sub>i</sub>) + \u03b2<sub>2</sub> x CI<sub>i</sub> + \u03b2<sub>3</sub> x SR<sub>j</sub> + \u03b5<sub>i</sub>\u00a0 where G<sub>i</sub>, D<sub>i</sub> and CI<sub>i</sub> are, respectively, the biomass growth, stem diameter and crown illumination index of tree i growing in plot j; SR<sub>j</sub> is the species richness of plot j; \u03b1<sub>j</sub> is a species\u2019 intrinsic growth rate for a tree growing in plot j; \u03b2<sub>1-3</sub> are, respectively, a species\u2019 growth response to size, light availability and species richness; and \u03b5<sub>i</sub> is the residual error. The structure of the growth model is adapted from Jucker et al. (2014b) and was fitted using the lmer function in R. Model robustness was assessed both visually, by comparing plots of predicted vs observed growth, and through a combination of model selection and goodness-of-fit tests (AIC model comparison and R<sup>2</sup>). Across all species, individual growth models explained much of the variation in growth among trees (Jucker et al., 2014a). iv. Scaling up to plot-level AWP To quantify AWP at the plot level, we used the fitted growth models to estimate the biomass growth of all trees that had not been cored. For each plot, we then summed the biomass growth of all standing trees to obtain an estimate of AWP. Growth estimates were generated using the predict.lmer function in R. f.\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0 Tree biomass: Aboveground biomass of all trees [Mg C ha<sup>-1</sup>] (tree_biomass) In each plot, the aboveground biomass (AGB, Mg C ha<sup>-1</sup>) of all the individual trees was estimated using tree diameter and height measurements in combination with species-specific biomass functions (see above). Biomass estimates of the individual trees were then summed to quantify the plot-level tree biomass. g.\u00a0\u00a0\u00a0\u00a0\u00a0 Understorey biomass: Dry weight of all understorey vegetation in a quadrant [g] (total_understorey_weight) In three subplots in each plot (upper right, central, lower left), a quadrant of 5 m x 5 m was marked for identification and estimation of cover of understorey vascular plant species (both woody and non-woody). Within each quadrant, all understorey vegetation was identified to species and afterwards clipped in a zone of 0.5 m x 0.5 m, where vegetation was relatively abundant and the composition was representative of the whole quadrant. The biomass samples (g) were dried for 48 h at 70\u00b0C before weighing. 4 4.\u00a0Regeneration a.\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0 Sapling growth: Growth of saplings up to 1.60 m tall [cm] (sapling_growth) Sapling growth measurements (cm) were taken in 2012 on a total of 30 saplings per species wherever possible. Saplings (up to 1.60 m tall) of all tree species in the regional species pool were selected in a subplot of 4x4 m located in the central part of the main plot. Sapling growth was quantified as the distance between the bud scars (internodes) along the main stem of the last five years (i.e. from 2007 to 2011), without considering the shoot of the current growing season. For details on the methodology, see Bastias et al. (2019). b.\u00a0\u00a0\u00a0\u00a0\u00a0 Tree seedling regeneration: Number of saplings up to 1.60 m tall (regeneration_seedlings) Field sampling for tree seedling regeneration was carried out at the same time and in the same subplot as the tree juvenile regeneration (see below). Tree seedling regeneration was quantified as the number of tree seedlings (i.e. less than a year old) of all tree species in the regional species pool. For details on the methodology, see Bastias et al. (2019). c.\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0 Tree juvenile regeneration: Number of tree seedlings less than a year old (regeneration_juveniles) Field sampling to quantify regeneration was carried out in 2012, from April to late August, in a subplot of 4x4m (16m2) delimited in the central part of the main plot. Tree juvenile regeneration was quantified as the number of sapling trees of tree species in the regional species pool over one year old and up to 1.60 m tall. For details on the methodology, see Bastias et al. (2019). 5 5.\u00a0Resistance to disturbance a.\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0 Resistance to drought: Difference in carbon isotope composition in wood cores between dry and wet years [\u2030] (wue) For each plot, we randomly selected six trees among the 12 largest ones (i.e. largest diameter at breast height, DBH). For the mixed plots, three trees per species were randomly selected among the six largest trees of each species. This selection was conducted as to only select dominant and/or co-dominant trees in order to avoid confounding factors related to light interception. From each selected tree, a wood core was extracted at breast height during the summers of 2012 and 2013. For each site, we selected two years with contrasting climatic conditions during the growing season (dry vs. wet year) during the 1997-2010 period, see Grossiord et al. (2014) for full details. Latewood samples from these two years were carefully extracted from each wood core. The late wood sections from a given year and a given species in a given plot were bulked and analyzed for their carbon isotope composition (\u03b4<sup>13</sup>C, \u2030) with a mass spectrometer. By only selecting latewood sections, we characterized the functioning of the trees during the second part of the growing season and avoided potential effects related to the remobilization of stored carbohydrates from the previous growing season or to a favorable spring climate. Plot-level \u03b4<sup>13</sup>C was calculated as the basal-area weighted average value of species-level \u03b4<sup>13</sup>C measurements. Soil drought exposure in each forest stand was calculated as the stand-level increase in carbon isotope composition of late wood from the wet to the dry year (\u0394\u03b4<sup>13</sup>CS). For more details on resistance to drought measurements, we refer to Grossiord et al. 2014 (2014). b.\u00a0\u00a0\u00a0\u00a0\u00a0 Resistance to insect damage: Foliage not damaged by insects [%] (resistance_insects) As for fungal pathogens sampling (see below), we estimated insect herbivory on six trees per species in monocultures and three trees per focal species in mixed forests. The herbivory assessment was done once, from late spring to early summer (see periods on fungal pathogens protocol below). The insect herbivory protocol was derived from the ICP Forests manual. It was adapted to better account for total insect damage by observing the whole tree crown, instead of the \u201cassessable crown\u201d only. Damage on the crown exposed to sunlight and in the shade was recorded separately, as foliar loss may be also due to competition for light or natural pruning in the shaded part, particularly in heliophilous tree species. We considered damage as leaf area loss or shoot mortality i.e. defoliation. To estimate herbivore impact, we compared the sampled trees to a \u201creference tree\u201d, i.e. a healthy tree with intact foliage in its vicinity. Using binoculars, we estimated the proportion of defoliation in the living crown (i.e. the crown excluding the dead branches) in both parts of the crown (sunlight-exposed PDL and in the shade PDS) and put the estimates in one out of seven percentage classes: 0%, 0.5-1%, 1-12.5%, 12.5-25%, 25-50%, 50-75% and &gt; 75% damage. The assessment was done from at least two sides of the crown to account for all damage. When a different score was attributed from different sides to a focal tree, the mean of damage class median was used. The total percent of defoliation was calculated as the natural logarithm of the sum of PDL and PDS. For further details on the methodology, see Guyot et al. (2016). c.\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0 Resistance to mammal browsing: Twigs not damaged by browsers [%] (lack_browsing) All plots were sampled using four 5m x 5m subplots located in the same areas of each plot.\u00a0 Within each of the four 5x5m subplots each woody species individual was visually inspected for browsing damage (bitten twigs).\u00a0 When browsing was found, the species was recorded, an estimation of the percentage of twigs browsed (between a height of 0.5\u20132 m) was made (biomass removed), and the stem diameter (at the base) and upper and lower limits of browsing were recorded. With these data, a plot-level average of the percentage of twigs browsed was calculated, and resistance to mammal browsing was defined as 100 - % of twigs browsed. d.\u00a0\u00a0\u00a0\u00a0\u00a0 Resistance to pathogen damage: Foliage not damaged by pathogens [%] (no_pathogen_damage) Fungal pathogen damage was assessed over a two-week period at each plot during the growing period, over two years. Foliage was collected from Italy (June-July 2012), Germany (July 2012), Finland (August 2012), Spain (June 2013), Romania (July 2013), and Poland (July-August 2013). In each plot, the six trees with the largest DBH per species were selected for trees within monoculture plots, and three trees with the largest DBH per species for trees within mixture plots. Foliage (leaves and shoots) samples were collected from branches from two levels of the tree canopy (25-60 leaves and 10 current-year shoots per branch) for each focal tree species. The number of leaves sampled from each focal tree and the number of plots within each tree species richness levels are enumerated in Table S8 in van der Plas et al. (2016a).\u00a0 Visual assessments for fungal pathogen damages were conducted on fresh leaves within one day of sampling. Leaves and shoots were assessed for four classes of fungal damages: oak powdery mildew and leaf spots for the broadleaved tree species, and rust and needle cast for the conifer species. The number of leaves or shoots with the respective damages per tree was recorded, as well as the number of leaves and shoots free from fungal pathogen damage, i.e. healthy foliage. To obtain a value of healthy foliage at the plot level, the sum of all healthy foliage for all trees within the plot was calculated and this was divided by the total number of foliage replicates to acquire a plot-level proportion of healthy foliage. All assessments were conducted by one person to avoid observer bias. For details on the sampling effort, we refer to Nguyen et al.(2016). e.\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0 Tree growth recovery: Ratio between post-drought growth and growth during the respective drought period (tree_growth_recovery) Following Lloret et al. (Lloret et al., 2011), growth recovery was defined as the ability to recover growth rates (see tree productivity section) after a decline in growth experienced during the low-growth period (see growth resistance section). It corresponds to the ratio between the average post-drought growth in the five years after a drought year and the growth during the respective low-growth year. Values less than 1 indicate a decline in growth after the drought year, while values greater than one indicate (partial) recovery. f.\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0 Tree growth resilience: Ratio between growth after and before the drought period (tree_growth_resilience) Following Lloret et al. (Lloret et al., 2011), growth resilience was defined as the capacity of the forest stand to return to pre-drought growth (see tree productivity section) levels after a drought and is estimated as the ratio between average growth in the five years after and before the low-growth period (see growth resistance section). g.\u00a0\u00a0\u00a0\u00a0\u00a0 Tree growth resistance: Ratio of tree growth during a drought period and growth during the previous five-year high-growth period (tree_growth_resistance) Following Lloret et al. (Lloret et al., 2011), growth resistance was quantified by comparing tree growth in a low-growth year to the mean growth in the preceding five years. The year with the lowest growth across the regions was 2003, with the exception of Germany and Spain, where the lowest growth was in 1998 and 2005, respectively. 1998 and 2003 were known as drought years across Europe, with the exception of Spain where 2005 was even drier. Growth resistance was defined as the reversal of the reduction in growth (methodology described in the tree productivity section) during the drought: as the ratio of growth during the low-growth year and the growth during the previous five-year high-growth period. The larger the value, the greater the resistance of tree growth to drought. h.\u00a0\u00a0\u00a0\u00a0\u00a0 Tree growth stability: Mean annual tree growth divided by standard deviation in annual tree growth between 1992 and 2011 (tree_growth_stability) Using the annual aboveground wood production (AWP, see tree productivity section above), for each plot the growth stability was calculated as: mean(AWP) / <em>sd(AWP)</em> where mean(AWP) is the temporal mean AWP and <em>sd(AWP)</em> is the standard deviation in AWP between 1992 and 2011. See Jucker <em>et al.</em> (2014) for more details. 6 6.\u00a0Timber quality a.\u00a0\u00a0\u00a0\u00a0\u00a0\u00a0 Stem quality: Mean plot silvicultural quality assessment based on stem characteristics (timber_quality) For timber quality measurements, in each plot, dendrometric data and externally visible stem characteristics were recorded. The silvicultural quality assessment was based on stem characteristics that can be measured and evaluated non-destructively and rapidly along with a measurement of potentially influencing factors at the tree- and stand-level. For each tree within a plot, total height, height of the crown base, height of the lowest dead branch (&gt; 1 cm diameter), and type of fork (or steeply angled branch) were measured. In addition, the presence of the following stem quality parameters was recorded: curving, stem lean, epicormic branching, coppicing, pathogenic, and other defects. Due to the multiple factors constituting stem quality and wood quality, a four-class stem quality grading scheme was used to aggregate all stem quality parameters collected for each tree into an appropriate stem quality score, allowing for the analysis of a single response variable across all regions, species diversity levels and compositions; see Table 1 in Benneter et al (2018), with quality class D=1 being the lowest, and class A=4 being the highest quality class. The assessment of stem quality parameters was limited to the butt log of the tree, which represented the lowest 5 meters of the stem for broadleaved tree species and a maximum of 10 meters from the stem base for conifers. Multiples of the 5-meter section were only considered if the second log showed at least quality class C=2, but only if the green crown base was above the section considered. It has been estimated that for most commercial species in Europe, these butt logs comprise up to 50-70 % (softwood) and 80-95 % (hardwood) of the total commercial tree value. Plot-level timber quality was then calculated as the average timber quality of all the individual trees. For further details, see Benneter et al. (2018). We further quantified the diversity of several forest-associated taxonomic groups (bats, birds, spiders, insects, earthworms, fungal pathogens, soil microbes, understorey plants, and their multi-diversity and multi-abundance/-activity indices) and many aspects of habitat quality (tree functional and structural diversity), in each plot; the respective data can be found here: Allan, E. et al. (2019). Tree diversity is key for promoting the diversity and abundance of forest\u2010associated taxa in Europe [Dataset]. Dryad. https://doi.org/10.5061/dryad.sf7m0cg22. See also: Ampoorter, E. et al. (2020) Tree diversity is key for promoting the diversity and abundance of forest-associated taxa in Europe. Oikos 129, 133-146. In addition, detailed measurements on soil fauna, properties, and functions have been quantified within the SoilForEUROPE project, see https://websie.cefe.cnrs.fr/soilforeurope/. References Baeten, L. et al., 2019. Identifying the tree species compositions that maximize ecosystem functioning in European forests. Journal of Applied Ecology, 56(3): 733-744. Baeten, L. et al., 2013. A novel comparative research platform designed to determine the functional significance of tree species diversity in European forests. Perspect Plant Ecol, 15: 281-291. Bastias, C.C., Mor\u00e1n-L\u00f3pez, T., Valladares, F. and Benavides, R., 2019. Seed size underlies the uncoupling in species composition between canopy and recruitment layers in European forests. Forest Ecol Manag, 449: 117471. Benneter, A., Forrester, D.I., Bouriaud, O., Dormann, C.F. and Bauhus, J., 2018. Tree species diversity does not compromise stem quality in major European forest types. Forest Ecol Manag, 422: 323-337. Dawud, S.M. et al., 2017. Tree species functional group is a more important driver of soil properties than tree species diversity across major European forest types. Functional Ecology, 31: 1153-1162. De Wandeler, H. et al., 2018. Tree identity rather than tree diversity drives earthworm communities in European forests. Pedobiologia, 67: 16-25. De Wandeler, H. et al., 2016. Drivers of earthworm incidence and abundance across European forests. Soil Biology and Biochemistry, 99: 167-178. Fin\u00e9r, L. et al., 2017. Conifer proportion explains fine root biomass more than tree species diversity and site factors in major European forest types. Forest Ecol Manag, 406(Supplement C): 330-350. Grossiord, C. et al., 2014. Tree diversity does not always improve resistance of forest ecosystems to drought. Proceedings of the National Academy of Sciences, 111(41): 14812-14815. Guyot, V., Castagneyrol, B., Vialatte, A., Deconchat, M. and Jactel, H., 2016. Tree diversity reduces pest damage in mature forests across Europe. Biology Letters, 12(4): 20151037. Joergensen, R.G. and Mueller, T., 1996. The fumigation-extraction method to estimate soil microbial biomass: Calibration of the kEN value. Soil Biology and Biochemistry, 28(1): 33-37. Joly, F.-X. et al., 2017. Tree species diversity affects decomposition through modified micro-environmental conditions across European forests. New Phytologist, 214: 1281-1293. Joly, F.-X., Scherer-Lorenzen, M. and H\u00e4ttenschwiler, S., 2023. Resolving the intricate role of climate in litter decomposition. Nature Ecology &amp; Evolution, 7(2): 214-223. Jucker, T., Bouriaud, O., Avacaritei, D. and Coomes, D.A., 2014a. Stabilizing effects of diversity on aboveground wood production in forest ecosystems: linking patterns and processes. Ecol Lett, 17(12): 1560\u20131569. Jucker, T. et al., 2014b. Competition for light and water play contrasting roles in driving diversity\u2013productivity relationships in Iberian forests. J Ecol, 102: 1202\u20131213. Kambach, S. et al., 2019. How do trees respond to species mixing in experimental compared to observational studies? Ecology and Evolution, 9(19): 11254-11265. Lloret, F., Keeling, E.G. and Sala, A., 2011. Components of tree resilience: Effects of successive low-growth episodes in old ponderosa pine forests. Oikos 120: 1909\u20131920. Nguyen, D. et al., 2016. Fungal disease incidence along tree diversity gradients depends on latitude in European forests. Ecology and Evolution, 6(8): 2426-2438. Pollastrini, M. et al., 2016a. Physiological significance of forest tree defoliation: results from a survey in a mixed forest in Tuscany (central Italy). Forest Ecology and Management 361: 170-178. Pollastrini, M. et al., 2016b. Taxonomic and ecological relevance of the chlorophyll a fluorescence signature of tree species in mixed European forests. New Phytologist, 212(1): 51-65. Ratcliffe, S. et al., 2017. Biodiversity and ecosystem functioning relations in European forests depend on environmental context. Ecol Lett, 20: 1414-1426. Skjemstad, J.O. and Baldock, J.A., 2007. Total and organic carbon. Soil sampling and methods of analysis. CRC Press, Boca Raton, FL. Tamminen, P. and Starr, M., 1994. Bulk density of forested mineral soils. Silva Fennica 28 (1): article id 5528. van der Plas, F. et al., 2016a. Jack-of-all-trades effects drive biodiversity-ecosystem multifunctionality relationships in European forests. Nature Communications, 7: 11109. van der Plas, F. et al., 2016b. Biotic homogenization can decrease landscape-scale forest multifunctionality. Proceedings of the National Academy of Sciences, 113(13): 3557-3562. van der Plas, F. et al., 2018. Continental mapping of forest ecosystem functions reveals a high but unrealised potential for forest multifunctionality. Ecol Lett, 21(1): 31-42. Van Heerwaarden, L.M., Toet, S. and Aerts, R., 2003. Current measures of nutrient resorption efficiency lead to a substantial underestimation of real resorption efficiency: facts and solutions. Oikos 101: 664-669. Vergutz, L., Manzoni, S., Porporato, A., Novais, R.F. and Jackson, R.B., 2012. Global resorption efficiencies and concentrations of carbon and nutrients in leaves of terrestrial plants. Ecological Monographs 82: 205-220. Vesterdal, L., Schmidt, I.K., Callesen, I., Nilsson, L.O. and Gundersen, P., 2008. Carbon and nitrogen in forest floor and mineral soil under six common European tree species. Forest Ecol Manag, 255(1): 35-48.", "keywords": ["Ecology", "FunDivEUROPE", "Biodiversity", "FOS: Earth and related environmental sciences", "15. Life on land", "6. Clean water", "multifunctionality", "13. Climate action", "FOS: Biological sciences", "11. Sustainability", "Ecosystem functioning", "14. Life underwater", "Ecology", " Evolution", " Behavior and Systematics", "Nature and Landscape Conservation"], "contacts": [{"organization": "Scherer-Lorenzen, Michael, Allan, Eric, Ampoorter, Evy, Avacaritiei, Daniel, Baeten, Lander, Barnoaiea, Ionut, Bastias, Cristina C., Bauhus, J\u00fcrgen, Benavides, Raquel, Benneter, Adam, Berger, Sigrid, Bonal, Damien, Bouriaud, Olivier, Bruelheide, Helge, Bussotti, Filippo, Carnol, Monique, Castagneyrol, Bastien, Che\u0107ko, Ewa, Coomes, David, Coppi, Andrea, Cosofret, Cosmin, Danila, Iulian, Dawud, Seid Muhie, De Wandeler, Hans, Domisch, Timo, Duduman, Gabriel, Fin\u00e9r, Leena, Fischer, Markus, Fotelli, Mariangela, Gessler, Arthur, Gimeno, Teresa E., Grossiord, Charlotte, Guyot, Virginie, H\u00e4ttenschwiler, Stephan, Jactel, Herv\u00e9, Jaroszewicz, Bogdan, Joly, Fran\u00e7ois\u2010Xavier, Jucker, Tommaso, Koricheva, Julia, L\u00f3pez-Quiroga, David, Milligan, Harriet, M\u00fcller, Sandra, Muys, Bart, Nguyen, Diem, Pollastrini, Martina, Rabasa, Sonia G., Radoglou, Kalliopi, Ratcliffe, Sophia, Raulund\u2010Rasmussen, Karsten, Ruiz\u2010Benito, Paloma, Seidl, Rupert, Seiferling, Ian, Selvi, Federico, Smerczy\u0144ski, Ireneusz, Stenlid, Jan, Valladares, Fernando, van der Plas, Fons, Verheyen, Kris, Vesterdal, Lars, von Wilpert, Klaus, Wirth, Christian, Zavala, Miguel A.,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5061/dryad.9ghx3ffpz"}, {"rel": "self", "type": "application/geo+json", "title": "10.5061/dryad.9ghx3ffpz", "name": "item", "description": "10.5061/dryad.9ghx3ffpz", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5061/dryad.9ghx3ffpz"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-11-06T00:00:00Z"}}, {"id": "10.5194/bg-19-3505-2022", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:21:54Z", "type": "Journal Article", "created": "2022-07-28", "title": "Reviews and syntheses: The promise of big diverse soil data, moving current practices towards future potential", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Abstract. In the age of big data, soil data are more available and richer than ever, but \u2013 outside of a few large soil survey resources \u2013 they remain largely unusable for informing soil management and understanding Earth system processes beyond the original study. Data science has promised a fully reusable research pipeline where data from past studies are used to contextualize new findings and reanalyzed for new insight. Yet synthesis projects encounter challenges at all steps of the data reuse pipeline, including unavailable data, labor-intensive transcription of datasets, incomplete metadata, and a lack of communication between collaborators. Here, using insights from a diversity of soil, data, and climate scientists, we summarize current practices in soil data synthesis across all stages of database creation: availability, input, harmonization, curation, and publication. We then suggest new soil-focused semantic tools to improve existing data pipelines, such as ontologies, vocabulary lists, and community practices. Our goal is to provide the soil data community with an overview of current practices in soil data and where we need to go to fully leverage big data to solve soil problems in the next century.                     </p></article>", "keywords": ["FOS: Computer and information sciences", "0301 basic medicine", "Data Sharing", "Information Systems and Management", "literature review", "1904 Earth-Surface Processes", "Social Sciences", "data set", "01 natural sciences", "Decision Sciences", "Data science", "Life", "QH501-531", "910 Geography & travel", "soil analysis", "database", "QH540-549.5", "2. Zero hunger", "QE1-996.5", "000", "Ecology", "communication", "Physics", "Earth", "Geology", "[SDU.ENVI] Sciences of the Universe [physics]/Continental interfaces", " environment", "World Wide Web", "10122 Institute of Geography", "soil survey", "Physical Sciences", "Data Reuse", "environment", "Information Systems", "Evolution", "future prospect", "Data management", "Data Sharing and Stewardship in Science", "Database", "Big data", "03 medical and health sciences", "Behavior and Systematics", "Data mining", "0105 earth and related environmental sciences", "[SDU.OCEAN]Sciences of the Universe [physics]/Ocean", "Management and Reproducibility of Scientific Workflows", "Metadata", "Data curation", "Atmosphere", "[SDU.OCEAN] Sciences of the Universe [physics]/Ocean", " Atmosphere", "Acoustics", "15. Life on land", "Computer science", "1105 Ecology", " Evolution", " Behavior and Systematics", "Surface Processes", "Harmonization", "FOS: Biological sciences", "Computer Science", "Environmental Science", "[SDU.ENVI]Sciences of the Universe [physics]/Continental interfaces", "soil management", "Research Data", "Environmental DNA in Biodiversity Monitoring"]}, "links": [{"href": "https://doi.org/10.5194/bg-19-3505-2022"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Biogeosciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.5194/bg-19-3505-2022", "name": "item", "description": "10.5194/bg-19-3505-2022", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5194/bg-19-3505-2022"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-07-28T00:00:00Z"}}, {"id": "10.5194/bg-8-2341-2011", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:21:56Z", "type": "Journal Article", "created": "2011-05-25", "title": "Nitrogen Enrichment Enhances The Dominance Of Grasses Over Forbs In A Temperate Steppe Ecosystem", "description": "<p>Abstract. Chinese grasslands are extensive natural ecosystems that comprise 40 % of the total land area of the country and are sensitive to N deposition. A field experiment with six N rates (0, 30, 60, 120, 240, and 480 kg N ha\uffe2\uff88\uff921 yr\uffe2\uff88\uff921) was conducted at Duolun, Inner Mongolia, during 2005 and 2010 to identify some effects of N addition on a temperature steppe ecosystem. The dominant plant species in the plots were divided into two categories, grasses and forbs, on the basis of species life forms. Enhanced N deposition, even as little as 30 kg N ha\uffe2\uff88\uff921 yr\uffe2\uff88\uff921 above ambient N deposition (16 kg N ha\uffe2\uff88\uff921 yr\uffe2\uff88\uff921), led to a decline in species richness. The cover of grasses increased with N addition rate but their species richness showed a weak change across N treatments. Both species richness and cover of forbs declined strongly with increasing N deposition as shown by linear regression analysis (p&lt;0.05). Increasing N deposition elevated aboveground production of grasses but lowered aboveground biomass of forbs. Plant N concentration, plant \uffce\uffb415N and soil mineral N increased with N addition, showing positive relationships between plant \uffce\uffb415N and N concentration, soil mineral N and/or applied N rate. The cessation of N application in the 480 kg N ha\uffe2\uff88\uff921 yr\uffe2\uff88\uff921 treatment in 2009 and 2010 led to a slight recovery of the forb species richness relative to total cover and aboveground biomass, coinciding with reduced plant N concentration and soil mineral N. The results show that N deposition induced changes in soil N transformations and plant N assimilation that are key to changes in species composition and biomass accumulation in this temperate steppe ecosystem.                         </p>", "keywords": ["0106 biological sciences", "2. Zero hunger", "QE1-996.5", "Ecology", "/dk/atira/pure/subjectarea/asjc/1900/1904", "Geology", "04 agricultural and veterinary sciences", "15. Life on land", "01 natural sciences", "6. Clean water", "Life", "13. Climate action", "QH501-531", "0401 agriculture", " forestry", " and fisheries", "14. Life underwater", "/dk/atira/pure/subjectarea/asjc/1100/1105", "Ecology", " Evolution", " Behavior and Systematics", "QH540-549.5", "Earth-Surface Processes"]}, "links": [{"href": "https://doi.org/10.5194/bg-8-2341-2011"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Biogeosciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.5194/bg-8-2341-2011", "name": "item", "description": "10.5194/bg-8-2341-2011", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5194/bg-8-2341-2011"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2011-05-25T00:00:00Z"}}, {"id": "10568/131386", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:24:57Z", "type": "Journal Article", "created": "2023-06-15", "title": "Bioinoculants and organic soil amendments affect nematode diversity in apple orchards", "description": "Open AccessNematodes with their versatile lifestyles provide a suitable lens to decipher the conditions of agroecosystems, but less is known about how they are affected by bioinoculants and organic soil amendments. To test if treatments modify the nematode community, we studied nematode communities in two different apple orchards under organic and integrated farming. Soil was treated with products containing arbuscular mycorrhizal fungi, bioeffectors, and organic amendments. The comparison between baseline and control samples indicated an overall higher nematode richness in organic than the integrated orchard. Sampling time more than treatment had a significant effect, and higher community richness was observed during spring as compared to autumn. The variation in nematode community composition was mainly explained by sampling time followed by treatment, and orchard type. Although all treatments reduced nematode richness, their effect generally varied across treatments. In both orchards, season-dependent effects of treatment on nematode families and trophic guilds were observed, with a higher percentage of bacterivorous and lower percentage of herbivorous nematodes during spring. The effect was driven by a few families, i.e. Rhabditidae and Tylenchidae. Our study provides insights about the effect of soil treatment on nematodes with implications for the development and modification of bioinoculants.", "keywords": ["330", "Organic farming", "Agroecosystem", "organic soils", "Orchard", "Plant Science", "630", "Trophic level", "Agricultural and Biological Sciences", "Bacterivore", "Soil biology", "Soil food web", "Mycorrhizal Fungi and Plant Interactions", "Soil water", "soils", "Plant Interactions", "Biology", "Ecology", " Evolution", " Behavior and Systematics", "biodiversity", "Nematode", "2. Zero hunger", "Ecology", "arbuscular mycorrhiza", "Life Sciences", "Agriculture", "15. Life on land", "Agronomy", "Plant-Parasitic Nematodes in Molecular Plant Pathology", "FOS: Biological sciences", "nematodes", "Impact of Pollinator Decline on Ecosystems and Agriculture", "Species richness"]}, "links": [{"href": "https://eprints.soton.ac.uk/495621/1/1-s2.0-S0929139323002020-main.pdf"}, {"href": "https://doi.org/10568/131386"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Soil%20Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10568/131386", "name": "item", "description": "10568/131386", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10568/131386"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-10-01T00:00:00Z"}}, {"id": "10400.5/24932", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:24:53Z", "type": "Journal Article", "created": "2022-06-10", "title": "Diversity and Agronomic Performance of Lupinus mutabilis Germplasm in European and Andean Environments", "description": "<p>The introduction of Lupinus mutabilis (Andean lupin) in Europe will provide a new source of protein and oil for plant-based diets and biomass for bio-based products, while contributing to the improvement of marginal soils. This study evaluates for the first time the phenotypic variability of a large panel of L. mutabilis accessions both in their native environment and over two cropping conditions in Europe (winter crop in the Mediterranean region and summer crop in North-Central Europe), paving the way for the selection of accessions adapted to specific environments. The panel of 225 accessions included both germplasm pools from the Andean region and breeding lines from Europe. Notably, we reported higher grain yield in Mediterranean winter-cropping conditions (18 g/plant) than in the native region (9 g/plant). Instead, North European summer-cropping conditions appear more suitable for biomass production (up to 2 kg/plant). The phenotypic evaluation of 16 agronomical traits revealed significant variation in the panel. Principal component analyses pointed out flowering time, yield, and architecture-related traits as the main factors explaining variation between accessions. The Peruvian material stands out among the top-yielding accessions in Europe, characterized by early lines with high grain yield (e.g., LIB065, LIB072, and LIB155). Bolivian and Ecuadorian materials appear more valuable for the selection of genotypes for Andean conditions and for biomass production in Europe. We also observed that flowering time in the different environments is influenced by temperature accumulation. Within the panel, it is possible to identify both early and late genotypes, characterized by different thermal thresholds (600\uffc2\uffb0C\uffe2\uff80\uff93700\uffc2\uffb0C and 1,000\uffe2\uff80\uff931,200\uffc2\uffb0C GDD, respectively). Indications on top-yielding and early/late accessions, heritability of morpho-physiological traits, and their associations with grain yield are reported and remain largely environmental specific, underlining the importance of selecting useful genetic resources for specific environments. Altogether, these results suggest that the studied panel holds the genetic potential for the adaptation of L. mutabilis to Europe and provide the basis for initiating a breeding program based on exploiting the variation described herein.</p", "keywords": ["Biomass (ecology)", "0301 basic medicine", "Lupin Seeds", "Cropping", "germplasm characterization", "Plant Science", "Crop", "Plant breeding", "SB1-1110", "Evolution and Nutritional Properties of Lupin Seeds", "Agricultural and Biological Sciences", "03 medical and health sciences", "Germplasm", "Biology", "Ecology", " Evolution", " Behavior and Systematics", "2. Zero hunger", "0303 health sciences", "biomass", "Ecology", "grain yield", "Plant culture", "Life Sciences", "Genomics and Breeding of Legume Crops", "Agriculture", "15. Life on land", "Agronomy", "Lupinus", "vegetative development", "Evolution and Ecology of Endophyte-Grass Symbiosis", "Andean lupin", "breeding", "FOS: Biological sciences", "Mediterranean Basin", "Mediterranean climate", "phenotypic diversity"]}, "links": [{"href": "https://repositorio.ulisboa.pt/bitstream/10400.5/24932/1/DRAT-fpls-13-903661.pdf"}, {"href": "https://doi.org/10400.5/24932"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Frontiers%20in%20Plant%20Science", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10400.5/24932", "name": "item", "description": "10400.5/24932", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10400.5/24932"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-06-10T00:00:00Z"}}, {"id": "10261/276560", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:24:46Z", "type": "Journal Article", "created": "2020-04-24", "title": "Alternation of wet and dry sides during partial rootzone drying irrigation enhances leaf ethylene evolution", "description": "Soil drying increases endogenous ABA and ACC concentrations in planta, but how these compounds interact to regulate stomatal responses to soil drying and re-watering is still unclear. To determine the temporal dynamics and physiological significance of root, xylem and leaf ABA and ACC concentrations in response to deficit irrigation (DI) or partial rootzone drying (PRD-F) and re-watering, these variables were measured in plants exposed to similar whole pot soil water contents. Both DI and PRD-F plants received only a fraction of the irrigation supplied to well-watered (WW) plants, either to all (DI) or part (PRD-F) of the rootzone of plants grown in split-pots. Both DI and PRD-F induced partial stomatal closure, increased root ABA and ACC accumulation consistent with local soil water content, but did not affect xylem or leaf concentrations of these compounds compared to WW plants. Two hours after re-watering all (DI-RW) or part of the rootzone (PRD-A) to the same soil water content, stomatal conductance returned to WW values or further decreased respectively. Re-watering the whole rootzone had no effect on xylem and leaf ABA and ACC concentrations, while re-watering the dry side of the pot in PRD plants had no effect on xylem and leaf ABA concentrations but increased xylem and leaf ACC concentrations and leaf ethylene evolution. Leaf water potential was similar between all irrigation treatments, with stomatal conductance declining as xylem ABA concentrations and leaf ACC concentrations increased. Prior to re-watering PRD plants, accounting for the spatial differences in soil water uptake best explained variation in xylem ACC concentration suggesting root-to-shoot ACC signalling, but this model did not account for variation in xylem ACC concentration after re-watering the dry side of PRD plants. Thus local (foliar) and long-distance (root-to-shoot) variation in ACC status both seem important in regulating the temporal dynamics of foliar ethylene evolution in plants exposed to PRD.", "keywords": ["0106 biological sciences", "Irrigation", "Stomatal conductance", "Root-to-shoot signalling", "Ethylene", "Physiological significance", "Deficit irrigation", "Plant Science", "Leaf water", "F06 Irrigation", "01 natural sciences", "ACC", "Ecology", " Evolution", " Behavior and Systematics", "580", "2. Zero hunger", "Xylem", "15. Life on land", "F60 Plant physiology and biochemistry", "6. Clean water", "Horticulture", "13. Climate action", "Soil water", "Agronomy and Crop Science", "Soil moisture heterogeneity", "Partial rootzone drying"]}, "links": [{"href": "https://eprints.lancs.ac.uk/id/eprint/144510/1/Juan_EEB_Manuscript_final.pdf"}, {"href": "https://doi.org/10261/276560"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20and%20Experimental%20Botany", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10261/276560", "name": "item", "description": "10261/276560", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10261/276560"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-08-01T00:00:00Z"}}, {"id": "10045/75093", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:24:40Z", "type": "Journal Article", "created": "2018-04-16", "title": "Intransitive competition is common across five major taxonomic groups and is driven by productivity, competitive rank and functional traits", "description": "Abstract<p><p>Competition can be fully hierarchical or intransitive, and this degree of hierarchy is driven by multiple factors, including environmental conditions, the functional traits of the species involved or the topology of competition networks. Studies simultaneously analysing these drivers of competition hierarchy are rare. Additionally, organisms compete either directly or via interference competition for resources or space, within a local neighbourhood or across the habitat. Therefore, the drivers of competition could change accordingly and depend on the taxa studied.</p><p>We performed the first multi\uffe2\uff80\uff90taxon study on pairwise competition across major taxonomic groups, including experiments with vascular plants, mosses, saprobic fungi, aquatic protists and soil bacteria. We evaluated how general is competition intransitivity from the pairwise competition matrix including all species and also for each possible three\uffe2\uff80\uff90species combination (triplets). We then examined which species were likely to engage in competitive loops and the effects of environmental conditions, competitive rank and functional traits on intransitive competition.</p><p>We found some degree of competition intransitivity in all taxa studied, with 38% to 5% of triplets being intransitive. Variance in competitive rank between species and more fertile conditions strongly reduced intransitivity, with triplets composed of species differing widely in their competitive ranks much less likely to be intransitive.</p><p>Including functional traits of the species involved more than doubled the variation explained compared to models including competitive rank only. Both trait means and variance within triplets affected the odds of them being intransitive. However, the traits responsible and the direction of trait effects varied widely between taxa, suggesting that traits can have a wide variety of effects on competition.</p><p>Synthesis. We evaluated the drivers of competition across multiple taxa and showed that productivity and competitive rank are fundamental drivers of intransitivity. We also showed that not only the functional traits of each species, but also those of the accompanying species, determine competition intransitivity. Intransitive competition is common across multiple taxa but can dampen under fertile conditions or for those species with large variance in their competitive abilities. This provides a first step towards predicting the prevalence of intransitive competition in natural communities.</p></p", "keywords": ["saprobic fungi", "0106 biological sciences", "01 natural sciences", "10127 Institute of Evolutionary Biology and Environmental Studies", "bryophytes", "XXXXXX - Unknown", "Competition hierarchy", "1110 Plant Science", "competition hierarchy", "functional traits", "vascular plants", "bacteria", "580", "protists", "Bacteria", "Vascular plants", "Bryophytes", "Saprobic fungi", "rock\u2013paper\u2013scissors", "Protists", "Ecolog\u00eda", "15. Life on land", "1105 Ecology", " Evolution", " Behavior and Systematics", "570 Life sciences; biology", "590 Animals (Zoology)", "competition", "Rock\u2013paper\u2013scissors", "2303 Ecology", "Functional traits"]}, "links": [{"href": "https://besjournals.onlinelibrary.wiley.com/doi/pdf/10.1111/1365-2745.12959"}, {"href": "https://doi.org/10045/75093"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10045/75093", "name": "item", "description": "10045/75093", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10045/75093"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-04-16T00:00:00Z"}}, {"id": "10754/675134", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:24:58Z", "type": "Journal Article", "title": "The Lys\u2010motif receptor LYK4 mediates Enterobacter sp. SA187 triggered salt tolerance in Arabidopsis thaliana", "description": "Root endophytes establish beneficial interactions with plants, improving holobiont resilience and fitness, but how plant immunity accommodates beneficial microbes is poorly understood. The multi-stress tolerance-inducing endophyte Enterobacter sp. SA187 triggers a canonical immune response in Arabidopsis only at high bacterial dosage (>108 \u2009CFUs\u2009ml-1 ), suggesting that SA187 is able to evade or suppress the plant defence system at lower titres. Although SA187 flagellin epitopes are recognized by the FLS2 receptor, SA187-triggered salt tolerance functions independently of the FLS2 system. In contrast, overexpression of the chitin receptor components LYK4 and LYK5 compromised the beneficial effect of SA187 on Arabidopsis, while it was enhanced in lyk4 mutant plants. Transcriptome analysis revealed that the role of LYK4 is intertwined with a function in remodelling defence responses with growth and root developmental processes. LYK4 interferes with modification of plant ethylene homeostasis by Enterobacter SA187 to boost salt stress resistance. Collectively, these results contribute to unlock the crosstalk between components of the plant immune system and beneficial microbes and point to a new role for the Lys-motif receptor LYK4 in beneficial plant-microbe interaction.", "keywords": ["580", "[SDV] Life Sciences [q-bio]", "570", "Arabidopsis Proteins", "[SDV]Life Sciences [q-bio]", "Arabidopsis", "Enterobacter", "Plant Immunity", "Salt Tolerance", "Microbiology", "Ecology", " Evolution", " Behavior and Systematics", "Research Articles"]}, "links": [{"href": "https://air.unimi.it/bitstream/2434/895359/2/Environmental%20Microbiology%20-%202021%20-%20Rolli%20-%20The%20Lys%e2%80%90motif%20receptor%20LYK4%20mediates%20Enterobacter%20sp%20%20SA187%20triggered%20salt.pdf"}, {"href": "https://doi.org/10754/675134"}, {"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": "10754/675134", "name": "item", "description": "10754/675134", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10754/675134"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-01-01T00:00:00Z"}}, {"id": "1959.7/uws:68562", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:25:23Z", "type": "Journal Article", "created": "2022-05-09", "title": "Phylotype diversity within soil fungal functional groups drives ecosystem stability", "description": "Soil fungi are fundamental to plant productivity, yet their influence on the temporal stability of global terrestrial ecosystems, and their capacity to buffer plant productivity against extreme drought events, remain uncertain. Here we combined three independent global field surveys of soil fungi with a satellite-derived temporal assessment of plant productivity, and report that phylotype richness within particular fungal functional groups drives the stability of terrestrial ecosystems. The richness of fungal decomposers was consistently and positively associated with ecosystem stability worldwide, while the opposite pattern was found for the richness of fungal plant pathogens, particularly in grasslands. We further demonstrated that the richness of soil decomposers was consistently positively linked with higher resistance of plant productivity in response to extreme drought events, while that of fungal plant pathogens showed a general negative relationship with plant productivity resilience/resistance patterns. Together, our work provides evidence supporting the critical role of soil fungal diversity to secure stable plant production over time in global ecosystems, and to buffer against extreme climate events.", "keywords": ["0301 basic medicine", "Evolution", "Resistance", "580 Plants (Botany)", "Soil", "03 medical and health sciences", "10126 Department of Plant and Microbial Biology", "Behavior and Systematics", "Soil fungal", "XXXXXX - Unknown", "10211 Zurich-Basel Plant Science Center", "Phylotype diversity", "Ecosystem", "Soil Microbiology", "Productivity", "2. Zero hunger", "0303 health sciences", "Ecology", "Biodiversity", "Ecolog\u00eda", "Plants", "15. Life on land", "Droughts", "Protect", " restore and promote sustainable use of terrestrial ecosystems", " sustainably manage forests", " combat desertification", " and halt and reverse land degradation and halt biodiversity loss", "1105 Ecology", " Evolution", " Behavior and Systematics", "13. Climate action", "Ecosystem stability", "http://metadata.un.org/sdg/15", "2303 Ecology"]}, "links": [{"href": "https://www.nature.com/articles/s41559-022-01756-5.pdf"}, {"href": "https://doi.org/1959.7/uws:68562"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Nature%20Ecology%20%26amp%3B%20Evolution", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "1959.7/uws:68562", "name": "item", "description": "1959.7/uws:68562", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/1959.7/uws:68562"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-05-09T00:00:00Z"}}, {"id": "20.500.11850/562259", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:25:30Z", "type": "Journal Article", "created": "2022-07-28", "title": "Reviews and syntheses: The promise of big diverse soil data, moving current practices towards future potential", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Abstract. In the age of big data, soil data are more available and richer than ever, but \u2013 outside of a few large soil survey resources \u2013 they remain largely unusable for informing soil management and understanding Earth system processes beyond the original study. Data science has promised a fully reusable research pipeline where data from past studies are used to contextualize new findings and reanalyzed for new insight. Yet synthesis projects encounter challenges at all steps of the data reuse pipeline, including unavailable data, labor-intensive transcription of datasets, incomplete metadata, and a lack of communication between collaborators. Here, using insights from a diversity of soil, data, and climate scientists, we summarize current practices in soil data synthesis across all stages of database creation: availability, input, harmonization, curation, and publication. We then suggest new soil-focused semantic tools to improve existing data pipelines, such as ontologies, vocabulary lists, and community practices. Our goal is to provide the soil data community with an overview of current practices in soil data and where we need to go to fully leverage big data to solve soil problems in the next century.</p></article>", "keywords": ["FOS: Computer and information sciences", "0301 basic medicine", "Data Sharing", "Information Systems and Management", "literature review", "1904 Earth-Surface Processes", "Social Sciences", "data set", "01 natural sciences", "Decision Sciences", "Data science", "Life", "QH501-531", "910 Geography & travel", "soil analysis", "database", "QH540-549.5", "2. Zero hunger", "QE1-996.5", "000", "Ecology", "communication", "Physics", "Earth", "Geology", "[SDU.ENVI] Sciences of the Universe [physics]/Continental interfaces", " environment", "World Wide Web", "10122 Institute of Geography", "soil survey", "Physical Sciences", "Data Reuse", "environment", "Information Systems", "Evolution", "future prospect", "Data management", "Data Sharing and Stewardship in Science", "Database", "Big data", "03 medical and health sciences", "Behavior and Systematics", "Data mining", "0105 earth and related environmental sciences", "[SDU.OCEAN]Sciences of the Universe [physics]/Ocean", "Management and Reproducibility of Scientific Workflows", "Metadata", "Data curation", "Atmosphere", "[SDU.OCEAN] Sciences of the Universe [physics]/Ocean", " Atmosphere", "Acoustics", "15. Life on land", "Computer science", "1105 Ecology", " Evolution", " Behavior and Systematics", "Surface Processes", "Harmonization", "FOS: Biological sciences", "Computer Science", "Environmental Science", "[SDU.ENVI]Sciences of the Universe [physics]/Continental interfaces", "soil management", "Research Data", "Environmental DNA in Biodiversity Monitoring"]}, "links": [{"href": "https://doi.org/20.500.11850/562259"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Biogeosciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "20.500.11850/562259", "name": "item", "description": "20.500.11850/562259", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/20.500.11850/562259"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-07-28T00:00:00Z"}}, {"id": "2158/1145846", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:25:42Z", "type": "Journal Article", "created": "2018-12-08", "title": "Soil Type and Cyanobacteria Species Influence the Macromolecular and Chemical Characteristics of the Polysaccharidic Matrix in Induced Biocrusts", "description": "Inoculation of soils with cyanobacteria is proposed as a sustainable biotechnological technique for restoration of degraded areas in drylands due to the important role that cyanobacteria and their exopolysaccharides (EPS) play in the environment. So far, few studies have analyzed the macromolecular and chemical characteristics of the polysaccharidic matrix in induced cyanobacterial biocrusts and the scarce existing studies have mainly focused on sandy soil textures. However, the characteristics of the cyanobacterial polysaccharidic matrix may greatly depend on soil type. The objective of this study was to examine the macromolecular distribution and monosaccharidic composition of the polysaccharidic matrix induced by inoculation of two cyanobacterial species common in arid environments, Phormidium ambiguum (non N-fixing) and Scytonema javanicum (N-fixing) in different soil types. S. javanicum promoted a higher release in the soil of the more soluble and less condensed EPS fraction (i.e., the loosely bound EPS fraction, LB-EPS), while P. ambiguum showed a higher release of the less soluble and more condensed EPS fraction (i.e., the tightly bound EPS fraction, TB-EPS). LB-EPSs were mainly composed of low MW molecules (<\u200950\u00a0kDa), while TB-EPSs were mainly composed of high MW molecules (1100-2000\u00a0kDa). The two EPS fractions showed a complex monosaccharidic composition (from 11 to 12 different types of monosaccharides), with glucose as the most abundant monosaccharide, in particular in the poorer soils characterized by lower organic C contents. In more C-rich soils, high abundances of galactose, mannose, and xylose were also found. Low abundance of uronic acids and hydrophobic monosaccharides, such as fucose and rhamnose, was found in the EPS extracted from the inoculated soils. Our results point to the influence of soil type on the macromolecular distribution and monosaccharide composition of the polysaccharidic matrix in induced biocrusts, which is likely to affect biocrust development and their role in soil structure and nutrient cycling in restored dryland soils.", "keywords": ["0301 basic medicine", "2. Zero hunger", "Soil", "0303 health sciences", "03 medical and health sciences", "13. Climate action", "Polysaccharides", " Bacterial", "Biological soil crust; Cyanobacteria inoculation; Loosely bound EPS; Molecular weight; Monosaccharide composition; Tightly bound EPS; Ecology; Evolution; Behavior and Systematics; Ecology; Soil Science", "Desert Climate", "15. Life on land", "Cyanobacteria", "Biological soil crust; Cyanobacteria inoculation; Loosely bound EPS; Molecular weight; Monosaccharide composition; Tightly bound EPS; Ecology", " Evolution", " Behavior and Systematics; Ecology; Soil Science", "Soil Microbiology"]}, "links": [{"href": "https://iris.unive.it/bitstream/10278/5089943/1/s00248-018-1305-y.pdf"}, {"href": "http://link.springer.com/content/pdf/10.1007/s00248-018-1305-y.pdf"}, {"href": "https://doi.org/2158/1145846"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microbial%20Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "2158/1145846", "name": "item", "description": "2158/1145846", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/2158/1145846"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-12-08T00:00:00Z"}}, {"id": "2164/23373", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:25:43Z", "type": "Journal Article", "created": "2023-11-29", "title": "Connecting the multiple dimensions of global soil fungal diversity", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>How the multiple facets of soil fungal diversity vary worldwide remains virtually unknown, hindering the management of this essential species-rich group. By sequencing high-resolution DNA markers in over 4000 topsoil samples from natural and human-altered ecosystems across all continents, we illustrate the distributions and drivers of different levels of taxonomic and phylogenetic diversity of fungi and their ecological groups. We show the impact of precipitation and temperature interactions on local fungal species richness (alpha diversity) across different climates. Our findings reveal how temperature drives fungal compositional turnover (beta diversity) and phylogenetic diversity, linking them with regional species richness (gamma diversity). We integrate fungi into the principles of global biodiversity distribution and present detailed maps for biodiversity conservation and modeling of global ecological processes.</p></article>", "keywords": ["Supplementary Data", "QH301 Biology", "Diversity (politics)", "Plant Science", "Biodiversity conservation", "Fungal Diversity", "Agricultural and Biological Sciences", "Soil", "Life", "Sociology", "WATER", "Global biodiversity distribution", "Fungal diversity", "Phylogeny", "Soil Microbiology", "2. Zero hunger", "Multidisciplinary", "Earth", " Environmental", " Ecological", " and Space Sciences", "Geography", "Ecology", "soil fungal diversity", "4. Education", "SPECIES RICHNESS", "Life Sciences", "https://www.science.org/doi/suppl/10.1126/sciadv.adj8016/suppl_file/sciadv.adj8016_sm.pdf", "Biodiversity", "FOS: Sociology", "global biodiversity distribution", "sienet", "https://www.science.org/doi/suppl/10.1126/sciadv.adj8016/suppl_file/sciadv.adj8016_tables_s1_to_s13.zip", "Diversity and Evolution of Fungal Pathogens", "570", "Supplementary Information", "DNA markers", "QH301", "Sequencing high-resolution DNA", "Biochemistry", " Genetics and Molecular Biology", "monimuotoisuus", "Mycorrhizal Fungi and Plant Interactions", "Life Science", "Humans", "14. Life underwater", "General", "Global ecological processes", "Biology", "Ecosystem", "Ecology", " Evolution", " Behavior and Systematics", "global ecological processes", "Soil fungal diversity", "microbiology", "Fungi", "Water", "Cell Biology", "15. Life on land", "luonnon monimuotoisuus", "Agronomy", "biodiversiteetti", "LIFE", "ekosysteemit (ekologia)", "Evolution and Ecology of Endophyte-Grass Symbiosis", "13. Climate action", "Ecology", " evolutionary biology", "Earth and Environmental Sciences", "FOS: Biological sciences", "Anthropology", "ta1181", "biodiversity conservation", "CBCE", "Species richness"]}, "links": [{"href": "https://www.science.org/doi/epdf/10.1126/sciadv.adj8016"}, {"href": "https://iris.unica.it/bitstream/11584/447894/1/Mikryukov%20et%20al_Science%20Advances%202023.pdf"}, {"href": "https://www.science.org/doi/pdf/10.1126/sciadv.adj8016"}, {"href": "https://doi.org/2164/23373"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Science%20Advances", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "2164/23373", "name": "item", "description": "2164/23373", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/2164/23373"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-12-01T00:00:00Z"}}, {"id": "2746124018", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:25:53Z", "type": "Journal Article", "created": "2017-08-22", "title": "A theory of participation: what makes stakeholder and public engagement in environmental management work?", "description": "Abstract<p>This article differentiates between descriptive and explanatory factors to develop a typology and a theory of stakeholder and public engagement. The typology describes different types of public and stakeholder engagement, and the theory comprises four factors that explain much of the variation in outcomes (for the natural environment and/or for participants) between different types of engagement. First, we use a narrative literature search to develop a new typology of stakeholder and public engagement based on agency (who initiates and leads engagement) and mode of engagement (from communication to coproduction). We then propose a theory to explain the variation in outcomes from different types of engagement: (1) a number of socioeconomic, cultural, and institutional contextual factors influence the outcomes of engagement; (2) there are a number of process design factors that can increase the likelihood that engagement leads to desired outcomes, across a wide range of sociocultural, political, economic, and biophysical contexts; (3) the effectiveness of engagement is significantly influenced by power dynamics, the values of participants, and their epistemologies, that is, the way they construct knowledge and which types of knowledge they consider valid; and (4) engagement processes work differently and can lead to different outcomes when they operate over different spatial and temporal scales. We use the theoretical framework to provide practical guidance for those designing engagement processes, arguing that a theoretically informed approach to stakeholder and public engagement has the potential to markedly improve the outcomes of environmental decision\uffe2\uff80\uff90making processes.</p", "keywords": ["Engagement", "/dk/atira/pure/core/keywords/nachhaltigkeitswissenschaft; name=Sustainability Science", "0211 other engineering and technologies", "02 engineering and technology", "16. Peace & justice", "/dk/atira/pure/subjectarea/asjc/1100/1105; name=Ecology", " Evolution", " Behavior and Systematics", "01 natural sciences", "Knowledge exchange", "Impact", "13. Climate action", "/dk/atira/pure/subjectarea/asjc/2300/2303; name=Ecology", "/dk/atira/pure/subjectarea/asjc/2300/2309; name=Nature and Landscape Conservation", "Decision-making", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://onlinelibrary.wiley.com/doi/pdf/10.1111/rec.12541"}, {"href": "https://doi.org/2746124018"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Restoration%20Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "2746124018", "name": "item", "description": "2746124018", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/2746124018"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-08-22T00:00:00Z"}}, {"id": "3020629696", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:26:09Z", "type": "Journal Article", "created": "2020-04-25", "title": "Alternation of wet and dry sides during partial rootzone drying irrigation enhances leaf ethylene evolution", "description": "Soil drying increases endogenous ABA and ACC concentrations in planta, but how these compounds interact to regulate stomatal responses to soil drying and re-watering is still unclear. To determine the temporal dynamics and physiological significance of root, xylem and leaf ABA and ACC concentrations in response to deficit irrigation (DI) or partial rootzone drying (PRD-F) and re-watering, these variables were measured in plants exposed to similar whole pot soil water contents. Both DI and PRD-F plants received only a fraction of the irrigation supplied to well-watered (WW) plants, either to all (DI) or part (PRD-F) of the rootzone of plants grown in split-pots. Both DI and PRD-F induced partial stomatal closure, increased root ABA and ACC accumulation consistent with local soil water content, but did not affect xylem or leaf concentrations of these compounds compared to WW plants. Two hours after re-watering all (DI-RW) or part of the rootzone (PRD-A) to the same soil water content, stomatal conductance returned to WW values or further decreased respectively. Re-watering the whole rootzone had no effect on xylem and leaf ABA and ACC concentrations, while re-watering the dry side of the pot in PRD plants had no effect on xylem and leaf ABA concentrations but increased xylem and leaf ACC concentrations and leaf ethylene evolution. Leaf water potential was similar between all irrigation treatments, with stomatal conductance declining as xylem ABA concentrations and leaf ACC concentrations increased. Prior to re-watering PRD plants, accounting for the spatial differences in soil water uptake best explained variation in xylem ACC concentration suggesting root-to-shoot ACC signalling, but this model did not account for variation in xylem ACC concentration after re-watering the dry side of PRD plants. Thus local (foliar) and long-distance (root-to-shoot) variation in ACC status both seem important in regulating the temporal dynamics of foliar ethylene evolution in plants exposed to PRD.", "keywords": ["0106 biological sciences", "Irrigation", "Stomatal conductance", "Root-to-shoot signalling", "Ethylene", "Physiological significance", "Deficit irrigation", "Plant Science", "Leaf water", "F06 Irrigation", "01 natural sciences", "ACC", "Ecology", " Evolution", " Behavior and Systematics", "580", "2. Zero hunger", "Xylem", "15. Life on land", "F60 Plant physiology and biochemistry", "6. Clean water", "Horticulture", "13. Climate action", "Soil water", "Agronomy and Crop Science", "Soil moisture heterogeneity", "Partial rootzone drying"]}, "links": [{"href": "https://eprints.lancs.ac.uk/id/eprint/144510/1/Juan_EEB_Manuscript_final.pdf"}, {"href": "https://doi.org/3020629696"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20and%20Experimental%20Botany", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "3020629696", "name": "item", "description": "3020629696", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/3020629696"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-08-01T00:00:00Z"}}, {"id": "PMC11494973", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-02T16:28:21Z", "type": "Journal Article", "created": "2024-09-10", "title": "A novel barcoded nanopore sequencing workflow of high-quality, full-length bacterial 16S amplicons for taxonomic annotation of bacterial isolates and complex microbial communities", "description": "ABSTRACT                                                             <p>                       Due to recent improvements, Nanopore sequencing has become a promising method for experiments relying on amplicon sequencing. We describe a flexible workflow to generate and annotate high-quality, full-length 16S rDNA amplicons. We evaluated it for two applications, namely, (i) identification of bacterial isolates and (ii) species-level profiling of microbial communities. We assessed the identification of single bacterial isolates by sequencing, using a set of barcoded full-length 16S rRNA gene primer pairs (pair A), on 47 isolates encompassing multiple genera and compared those results with matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS)-based identification. Species-level community profiling was tested with two sets of barcoded full-length 16S primer pairs (A and B) and compared to the results obtained with shotgun Illumina sequencing using 27 stool samples. We developed a Nextflow pipeline to retain high-quality reads and taxonomically annotate them. We found high agreement between our workflow and MALDI-TOF data for isolate identification (positive predictive value = 0.90, Cram\uffc3\uffa9r\uffe2\uff80\uff99s                       V                       = 0.857, and Theil\uffe2\uff80\uff99s                       U                       = 0.316). For species-level community profiling, we found strong correlations (                       r                                                s                                              &gt; 0.6) of alpha diversity indices between the two primer sets and Illumina sequencing. At the community level, we found significant but small differences when comparing sequencing techniques. Finally, we found a moderate to strong correlation when comparing the relative abundances of individual species (average                       r                                                s                                              = 0.6 and 0.533 for primers A and B). Despite identified shortcomings, the proposed workflow enabled accurate identification of single bacterial isolates and prominent features in microbial communities, making it a worthwhile alternative to MALDI-TOF MS and Illumina sequencing.                     </p>                                            IMPORTANCE                       <p>A quick, robust, simple, and cost-effective method to identify bacterial isolates and communities in each sample is indispensable in the fields of microbiology and infection biology. Recent technological advances in Oxford Nanopore Technologies sequencing make this technique an attractive option considering the adaptability, portability, and cost-effectiveness of the platform, even with small sequencing batches. Here, we validated a flexible workflow to identify bacterial isolates and characterize bacterial communities using the Oxford Nanopore Technologies sequencing platform combined with the most recent v14 chemistry kits. For bacterial isolates, we compared our nanopore-based approach to matrix-assisted laser desorption ionization-time of flight mass spectrometry-based identification. For species-level profiling of complex bacterial communities, we compared our nanopore-based approach to Illumina shotgun sequencing. For reproducibility purposes, we wrapped the code used to process the sequencing data into a ready-to-use and self-contained Nextflow pipeline.</p>", "keywords": ["DNA", " Bacterial", "1303 Biochemistry", "gut microbiome", "610 Medicine & health", "Microbiology", "Workflow", "1311 Genetics", "RNA", " Ribosomal", " 16S", "1312 Molecular Biology", "1706 Computer Science Applications", "DNA Barcoding", " Taxonomic", "Humans", "DNA sequencing", "Bacteria", "10179 Institute of Medical Microbiology", "Microbiota", "2404 Microbiology", "1314 Physiology", "bioinformatics", "QR1-502", "Nanopore Sequencing", "1105 Ecology", " Evolution", " Behavior and Systematics", "Spectrometry", " Mass", " Matrix-Assisted Laser Desorption-Ionization", "570 Life sciences; biology", "2611 Modeling and Simulation", "Research Article"]}, "links": [{"href": "https://doi.org/PMC11494973"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/mSystems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "PMC11494973", "name": "item", "description": "PMC11494973", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PMC11494973"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-04-11T00:00:00Z"}}], "links": [{"rel": "self", "type": "application/geo+json", "title": "This document as GeoJSON", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=+Behavior+and+Systematics&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=+Behavior+and+Systematics&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=+Behavior+and+Systematics&", "hreflang": "en-US"}, {"rel": "last", "type": "application/geo+json", "title": "items (last)", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=+Behavior+and+Systematics&offset=49", "hreflang": "en-US"}], "numberMatched": 49, "numberReturned": 49, "distributedFeatures": [], "timeStamp": "2026-05-03T12:41:03.744362Z"}