{"type": "FeatureCollection", "features": [{"id": "10.1093/plphys/kiad398", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:18:30Z", "type": "Journal Article", "created": "2023-07-10", "title": "Aromatic amino acid biosynthesis impacts root hair development and symbiotic associations inLotus japonicus", "description": "Abstract

Legume roots can be symbiotically colonized by arbuscular mycorrhizal (AM) fungi and nitrogen-fixing bacteria. In Lotus japonicus, the latter occurs intracellularly by the cognate rhizobial partner Mesorhizobium loti or intercellularly with the Agrobacterium pusense strain IRBG74. Although these symbiotic programs show distinctive cellular and transcriptome signatures, some molecular components are shared. In this study, we demonstrate that 3-deoxy-d-arabino-heptulosonate 7-phosphate synthase 1 (DAHPS1), the first enzyme in the biosynthetic pathway of aromatic amino acids (AAAs), plays a critical role in root hair development and for AM and rhizobial symbioses in Lotus. Two homozygous DAHPS1 mutants (dahps1-1 and dahps1-2) showed drastic alterations in root hair morphology, associated with alterations in cell wall dynamics and a progressive disruption of the actin cytoskeleton. The altered root hair structure was prevented by pharmacological and genetic complementation. dahps1-1 and dahps1-2 showed significant reductions in rhizobial infection (intracellular and intercellular) and nodule organogenesis and a delay in AM colonization. RNAseq analysis of dahps1-2 roots suggested that these phenotypes are associated with downregulation of several cell wall\uffe2\uff80\uff93related genes, and with an attenuated signaling response. Interestingly, the dahps1 mutants showed no detectable pleiotropic effects, suggesting a more selective recruitment of this gene in certain biological processes. This work provides robust evidence linking AAA metabolism to root hair development and successful symbiotic associations. Methane emissions from plant foliage may play an important role in the global methane cycle, but their size and the underlying source processes remain poorly understood. Here, we quantify methane fluxes from the shoots of Scots pine trees, a dominant tree species in boreal forests, to identify source processes and environmental drivers, and we evaluate whether these fluxes can be constrained at the ecosystem-level by eddy covariance flux measurements. We show that shoot-level measurements conducted in forest, garden, or greenhouse settings; on mature trees and saplings; manually and with an automated CO 2 -, temperature-, and water-controlled chamber system; and with multiple methane analyzers all resulted in comparable daytime fluxes (0.144 \uffc2\uffb1 0.019 to 0.375 \uffc2\uffb1 0.074 nmol CH 4 g \uffe2\uff88\uff921 foliar d.w. h \uffe2\uff88\uff921 ). We further find that these emissions exhibit a pronounced diurnal cycle that closely follows photosynthetically active radiation and is further modulated by temperature. These diurnal patterns indicate that methane production is associated with diurnal cycle of sunlight, indicating that this production is either a byproduct of photosynthesis-associated biochemical reactions (e.g., the methionine cycle) or produced through nonenzymatic photochemical reactions in plant biomass. Moreover, we identified a light-dependent component in stand-level methane fluxes, which showed order-of-magnitude agreement with shoot-level measurements (0.968 \uffc2\uffb1 0.031 nmol CH 4 g \uffe2\uff88\uff921 h \uffe2\uff88\uff921 ) and which provides an upper limit for shoot methane emissions. Methane (CH4) fluxes at peatland plant surfaces are net results of transport of soil-produced CH4 and within-plant CH4 production and consumption, yet factors and processes controlling these fluxes remain unclear. We aimed to assess the effects of seasonality, environmental variables, and CH4 cycling microbes on CH4 fluxes from characteristic fen species.

Methods

Four species (Carex rostrata, Menyanthes trifoliata, Betula nana, Salix lapponum) were selected, and their CH4 fluxes determined in climate-controlled environments with three mesocosms per growing season per species. Microbial genes for CH4 cycling were analysed to check the potential for within-plant CH4 production and oxidation. Two extra experiments were conducted: removal of C. rostrata leaves to identify how leaves constrain CH4 transport, and a labelling experiment with S. lapponum to distinguish between plant-produced and soil-produced CH4 in the plant flux.

Results

All species showed seasonal variability in CH4 fluxes. Higher porewater CH4 concentration increased fluxes from C. rostrata and M. trifoliata, decreased fluxes from S. lapponum, and did not affect fluxes from B. nana. Air temperature only and negatively affected CH4 flux from C. rostrata. Light level did not impact CH4 fluxes. Both methanogens and methanotrophs were detected in shoots of S. lapponum and M. trifoliata, methanotrophs in B. nana, and neither in C. rostrata.

Conclusion

Our study demonstrates that the seasonal phase of the plants regulates the CH4 fluxes they mediate across species. The detection of methanogens and methanotrophs in herbs and shrubs suggests that microbial processes may contribute to their CH4 fluxes.

", "keywords": ["0301 basic medicine", "570", "0303 health sciences", "metanotrofit", "varvut", "Herbs", "11831 Plant biology", "metaani", "Environmental sciences", "Controlled environments", "Microbes", "03 medical and health sciences", "Phenology", "suot", "Plant-mediated CH fluxes", "suokasvillisuus", "Shrubs", "metanogeenit", "sarat"]}, "links": [{"href": "https://doi.org/10.1007/s11104-024-06756-x"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Plant%20and%20Soil", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s11104-024-06756-x", "name": "item", "description": "10.1007/s11104-024-06756-x", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s11104-024-06756-x"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-06-01T00:00:00Z"}}, {"id": "10.1007/s12155-017-9858-z", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:15:18Z", "type": "Journal Article", "created": "2017-08-03", "title": "Can Cover Crop Use Allow Increased Levels Of Corn Residue Removal For Biofuel In Irrigated And Rainfed Systems?", "description": "Corn (Zea mays L.) residue removal at high rates can result in negative impacts to soil ecosystem services. The use of cover crops could be a potential strategy to ameliorate any adverse effects of residue removal while allowing greater removal levels. Hence, the objective of this study was to determine changes in water erosion potential, soil organic C (SOC) and total N concentration, and crop yields under early- and late-terminated cover crop (CC) combined with five levels of corn residue removal after 3\u00a0years on rainfed and irrigated no-till continuous corn in Nebraska. Treatments were no CC, early- and late-terminated winter rye (Secale cereale L.) CC, and 0, 25, 50, 75, and 100% corn residue removal rates. Complete residue removal reduced mean weight diameter (MWD) of water-stable aggregates (5\u00a0cm depth) by 29% compared to no removal at the rainfed site only, suggesting increased water erosion risk at rainfed sites. Late-terminated CC significantly increased MWD of water-stable aggregates by 27 to 37% at both sites compared to no CC, but early-terminated CC had no effect. The increased MWD with late-terminated CC suggests that CC when terminated late can offset residue removal-induced risks of water erosion. Residue removal and CC did not affect SOC and total soil N concentration. Particulate organic matter increased with late-terminated CC at the irrigated site compared to no CC. Complete residue removal increased irrigated grain yield by 9% in 1\u00a0year relative to no removal. Late-terminated CC had no effect on corn yield except in 1\u00a0year when yield was 8% lower relative to no CC due to low precipitation at corn establishment. Overall, late-terminated CC ameliorates residue removal-induced increases in water erosion potential and could allow greater levels of removal without reducing corn yields in most years, in the short term, under the conditions of this study.", "keywords": ["330", "Plant Biology", "Winter rye", "Horticulture", "Aggregate stability", "Mean weight diameter", "7. Clean energy", "630", "Agronomy and Crop Sciences", "Agricultural Science", "Residue removal", "2. Zero hunger", "Late termination", "Plant Sciences", "Botany", "Life Sciences", "Agriculture", "04 agricultural and veterinary sciences", "15. Life on land", "6. Clean water", "Early termination", "Corn yield", "Cover crop", "Other Plant Sciences", "0401 agriculture", " forestry", " and fisheries", "Soil organic C"]}, "links": [{"href": "https://doi.org/10.1007/s12155-017-9858-z"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/BioEnergy%20Research", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s12155-017-9858-z", "name": "item", "description": "10.1007/s12155-017-9858-z", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s12155-017-9858-z"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-08-04T00:00:00Z"}}, {"id": "10.1007/s13225-024-00533-y", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:15:19Z", "type": "Journal Article", "created": "2024-02-26", "title": "Class-wide genomic tendency throughout specific extremes in black fungi", "description": "Open AccessPeer reviewed", "keywords": ["570", "Black Fungi", "Plant Biology", "Mycology & Parasitology", "Evolutionary biology", "Microbiology", "Genetics", "Black fungi \u00b7 Stress resistance \u00b7 Comparative genomics \u00b7 Extreme environments", "14. Life underwater", "Plant biology", "2. Zero hunger", "Evolutionary Biology", "Black fungi", "Comparative genomics", "Human Genome", "500", "Extreme environments", "Biological Sciences", "15. Life on land", "3. Good health", "Health Disparities", "13. Climate action", "8. Economic growth", "Stress resistance", "Settore BIO/19 - MICROBIOLOGIA GENERALE", "Biotechnology"]}, "links": [{"href": "https://iris.unitn.it/bitstream/11572/450837/1/FUDI_Coleine%20et%20al%20v2..pdf"}, {"href": "https://iris.unitn.it/bitstream/11572/450837/3/s13225-024-00533-y.pdf"}, {"href": "https://escholarship.org/content/qt86f967px/qt86f967px.pdf"}, {"href": "https://doi.org/10.1007/s13225-024-00533-y"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Fungal%20Diversity", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s13225-024-00533-y", "name": "item", "description": "10.1007/s13225-024-00533-y", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s13225-024-00533-y"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-02-26T00:00:00Z"}}, {"id": "10.1016/j.enganabound.2019.03.025", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:16:06Z", "type": "Journal Article", "created": "2019-04-17", "title": "Smoothed particle hydrodynamics for root growth mechanics", "description": "zbMATH Open Web Interface contents unavailable due to conflicting licenses.", "keywords": ["Plant biology", "cell division", "0301 basic medicine", "0303 health sciences", "03 medical and health sciences", "smoothed particle hydrodynamics", "Particle methods and lattice-gas methods", "Probabilistic methods", " particle methods", " etc. for initial value and initial-boundary value problems involving PDEs", "anisotropic material", "root growth model", "dualsphysics"]}, "links": [{"href": "https://doi.org/10.1016/j.enganabound.2019.03.025"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Engineering%20Analysis%20with%20Boundary%20Elements", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.enganabound.2019.03.025", "name": "item", "description": "10.1016/j.enganabound.2019.03.025", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.enganabound.2019.03.025"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-08-01T00:00:00Z"}}, {"id": "10.1016/j.isci.2019.10.043", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:16:33Z", "type": "Journal Article", "created": "2019-10-25", "title": "Genetic Loci Associated with Early Salt Stress Responses of Roots", "description": "Salinity is a devastating abiotic stress accounting for major crop losses yearly. Plant roots can strikingly grow away from high-salt patches. This response is termed halotropism and occurs through auxin redistribution in roots in response to a salt gradient. Here, a natural variation screen for the early and NaCl-specific halotropic response of 333 Arabidopsis accessions revealed quantitative differences in the first 24 h. These data were successfully used to identify genetic components associated with the response through Genome-Wide Association Study (GWAS). Follow-up characterization of knockout mutants in Col-0 background confirmed the role of transcription factor WRKY25, cation-proton exchanger CHX13, and a gene of unknown function DOB1 (Double Bending 1) in halotropism. In chx13 and dob1 mutants, ion accumulation and shoot biomass under salt stress were also affected. Thus, our GWAS has identified genetic components contributing to main root halotropism that provide insight into the genetic architecture underlying plant salt responses.", "keywords": ["580", "0301 basic medicine", "2. Zero hunger", "570", "0303 health sciences", "Science", "Q", "Plant Biology", "Biological Sciences", "15. Life on land", "Plant Genetics", "Article", "03 medical and health sciences", "Plant Physiology"]}, "links": [{"href": "https://doi.org/10.1016/j.isci.2019.10.043"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/iScience", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.isci.2019.10.043", "name": "item", "description": "10.1016/j.isci.2019.10.043", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.isci.2019.10.043"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-11-01T00:00:00Z"}}, {"id": "10.1016/j.pedobi.2017.05.003", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:16:45Z", "type": "Journal Article", "created": "2017-05-13", "title": "Priorities for research in soil ecology", "description": "The ecological interactions that occur in and with soil are of consequence in many ecosystems on the planet. These interactions provide numerous essential ecosystem services, and the sustainable management of soils has attracted increasing scientific and public attention. Although soil ecology emerged as an independent field of research many decades ago, and we have gained important insights into the functioning of soils, there still are fundamental aspects that need to be better understood to ensure that the ecosystem services that soils provide are not lost and that soils can be used in a sustainable way. In this perspectives paper, we highlight some of the major knowledge gaps that should be prioritized in soil ecological research. These research priorities were compiled based on an online survey of 32 editors of Pedobiologia - Journal of Soil Ecology. These editors work at universities and research centers in Europe, North America, Asia, and Australia.The questions were categorized into four themes: (1) soil biodiversity and biogeography, (2) interactions and the functioning of ecosystems, (3) global change and soil management, and (4) new directions. The respondents identified priorities that may be achievable in the near future, as well as several that are currently achievable but remain open. While some of the identified barriers to progress were technological in nature, many respondents cited a need for substantial leadership and goodwill among members of the soil ecology research community, including the need for multi-institutional partnerships, and had substantial concerns regarding the loss of taxonomic expertise.", "keywords": ["0301 basic medicine", "aboveground-belowground interactions", "Biologia", "Aboveground-belowground interactions", "910", "soil processes", "soil microbial ecology", "Microbial ecology", "Novel environments", "Soil food web", "11. Sustainability", "Climate change", "0503 Soil Sciences", "Global change", "biodiversity", "ecosystem management", "2. Zero hunger", "biodiversity\u2013ecosystem functioning", "0303 health sciences", "Plant-microbe interaction", "Agronomy & Agriculture", "Soil processes", "climate change", "ekosysteemipalvelut", "Biogeography", "international", "570", "Soil management", "Ecosystem service", "Biodiversity\u2013ecosystem functioning", "0607 Plant Biology", "plant-microbe interactions", "soil biodiversity", "Chemical ecology", "Aboveground-belowground interactions; Biodiversity\u2013ecosystem functioning; Biogeography; Chemical ecology; Climate change; Ecosystem services; Global change; Microbial ecology; Novel environments; Plant-microbe interactions; Soil biodiversity; Soil food web; Soil management; Soil processes", "climatic changes", "eli\u00f6maantiede", "12. Responsible consumption", "Aboveground-belowground interaction", "03 medical and health sciences", "soil food web", "Novel environment", "XXXXXX - Unknown", "Ecosystem services", "Biology", "global change", "maaper\u00e4nsuojelu", "chemical ecology", "500", "15. Life on land", "Soil biodiversity", "biodiversiteetti", "ekosysteemit (ekologia)", "mikrobiekologia", "13. Climate action", "ilmastonmuutos", "novel environments", "ta1181", "soil management", "Plant-microbe interactions", "0703 Crop And Pasture Production"]}, "links": [{"href": "https://usiena-air.unisi.it/bitstream/11365/1134372/2/Eisenhauer_et_al_research_priorities_20170503.pdf"}, {"href": "https://doi.org/10.1016/j.pedobi.2017.05.003"}, {"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.2017.05.003", "name": "item", "description": "10.1016/j.pedobi.2017.05.003", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.pedobi.2017.05.003"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-07-01T00:00:00Z"}}, {"id": "10.1017/s1742170511000317", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:17:27Z", "type": "Journal Article", "created": "2011-07-22", "title": "Soil Fertility And Crop Yields In Long-Term Organic And Conventional Cropping Systems In Eastern Nebraska", "description": "Abstract

Organic agriculture aims to build soil quality and provide long-term benefits to people and the environment; however, organic practices may reduce crop yields. This long-term study near Mead, NE was conducted to determine differences in soil fertility and crop yields among conventional and organic cropping systems between 1996 and 2007. The conventional system (CR) consisted of corn (Zea maysL.) or sorghum (Sorghum bicolor(L.) Moench)\uffe2\uff80\uff93soybean (Glycine max(L.) Merr.)\uffe2\uff80\uff93sorghum or corn\uffe2\uff80\uff93soybean, whereas the diversified conventional system (DIR) consisted of corn or sorghum\uffe2\uff80\uff93sorghum or corn\uffe2\uff80\uff93soybean\uffe2\uff80\uff93winter wheat (wheat,Triticum aestivumL.). The animal manure-based organic system (OAM) consisted of soybean\uffe2\uff80\uff93corn or sorghum\uffe2\uff80\uff93soybean\uffe2\uff80\uff93wheat, while the forage-based organic system (OFG) consisted of alfalfa (Medicago sativaL.)\uffe2\uff80\uff93alfalfa\uffe2\uff80\uff93corn or sorghum\uffe2\uff80\uff93wheat. Averaged across sampling years, soil organic matter content (OMC), P, pH, Ca, K, Mg and Zn in the top 15 cm of soil were greatest in the OAM system. However, by 2008 OMC was not different between the two organic systems despite almost two times greater carbon inputs in the OAM system. Corn, sorghum and soybean average annual yields were greatest in either of the two conventional systems (7.65, 6.36 and 2.60 Mg ha\uffe2\uff88\uff921, respectively), whereas wheat yields were greatest in the OAM system (3.07 Mg ha\uffe2\uff88\uff921). Relative to the mean of the conventional systems, corn yields were reduced by 13 and 33% in the OAM and OFG systems, respectively. Similarly, sorghum yields in the OAM and OFG systems were reduced by 16 and 27%, respectively. Soybean yields were 20% greater in the conventional systems compared with the OAM system. However, wheat yields were 10% greater in the OAM system compared with the conventional DIR system and 23% greater than yield in the OFG system. Alfalfa in the OFG system yielded an average of 7.41 Mg ha\uffe2\uff88\uff921annually. Competitive yields of organic wheat and alfalfa along with the soil fertility benefits associated with animal manure and perennial forage suggest that aspects of the two organic systems be combined to maximize the productivity and sustainability of organic cropping systems.

", "keywords": ["2. Zero hunger", "Organic matter content", "Organic farming", "Animal manure", "Soil phosphorus", "Plant Sciences", "Botany", "Plant Biology", "04 agricultural and veterinary sciences", "Horticulture", "15. Life on land", "Perennial forage", "Nutrient budgets", "630", "6. Clean water", "Agronomy and Crop Sciences", "Long-term crop rotations", "0401 agriculture", " forestry", " and fisheries", "Agricultural Science"], "contacts": [{"organization": "Wortman, Samuel E., Galusha, Tomie D., Mason, Stephen C., Francis, Charles A.,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1017/s1742170511000317"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Renewable%20Agriculture%20and%20Food%20Systems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1017/s1742170511000317", "name": "item", "description": "10.1017/s1742170511000317", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1017/s1742170511000317"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2011-07-22T00:00:00Z"}}, {"id": "10.1038/s41467-019-08348-1", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:17:48Z", "type": "Journal Article", "created": "2019-02-14", "title": "Decadal biomass increment in early secondary succession woody ecosystems is increased by CO2 enrichment", "description": "Abstract

Increasing atmospheric CO2 stimulates photosynthesis which can increase net primary production (NPP), but at longer timescales may not necessarily increase plant biomass. Here we analyse the four decade-long CO2-enrichment experiments in woody ecosystems that measured total NPP and biomass. CO2 enrichment increased biomass increment by 1.05\uffe2\uff80\uff89\uffc2\uffb1\uffe2\uff80\uff890.26\uffe2\uff80\uff89kg\uffe2\uff80\uff89C\uffe2\uff80\uff89m\uffe2\uff88\uff922 over a full decade, a 29.1\uffe2\uff80\uff89\uffc2\uffb1\uffe2\uff80\uff8911.7% stimulation of biomass gain in these early-secondary-succession temperate ecosystems. This response is predictable by combining the CO2 response of NPP (0.16\uffe2\uff80\uff89\uffc2\uffb1\uffe2\uff80\uff890.03\uffe2\uff80\uff89kg\uffe2\uff80\uff89C\uffe2\uff80\uff89m\uffe2\uff88\uff922\uffe2\uff80\uff89y\uffe2\uff88\uff921) and the CO2-independent, linear slope between biomass increment and cumulative NPP (0.55\uffe2\uff80\uff89\uffc2\uffb1\uffe2\uff80\uff890.17). An ensemble of terrestrial ecosystem models fail to predict both terms correctly. Allocation to wood was a driver of across-site, and across-model, response variability and together with CO2-independence of biomass retention highlights the value of understanding drivers of wood allocation under ambient conditions to\uffc2\uffa0correctly interpret\uffc2\uffa0and predict CO2 responses.

", "keywords": ["[SDE] Environmental Sciences", "0106 biological sciences", "0301 basic medicine", "TREE MORTALITY", "550", "Climate", "Plant Biology", "Biochemistry", "01 natural sciences", "Trees", "atmospheric carbon dioxide", "ddc:550", "Biomass", "Photosynthesis", "Ecology", "Q", "FOREST PRODUCTIVITY", "Forestry", "Biological Sciences", "woody", "decadal biomass", "Wood", "[SDE]Environmental Sciences", "GROWTH", "ecosystems", "CARBON ALLOCATION", "570", "Science", "Biophysics", "333", "SWEETGUM PLANTATION", "Article", "03 medical and health sciences", "XXXXXX - Unknown", "forest ecology", "plant biomass", "Biochemistry", " Biophysics", " and Structural Biology", "Ecosystem", "photosynthesis", "Carbon Dioxide", "15. Life on land", "[SDE.BE] Environmental Sciences/Biodiversity and Ecology", "NITROGEN", "CLIMATE", "13. Climate action", "and Structural Biology", "[SDE.BE]Environmental Sciences/Biodiversity and Ecology", "ELEVATED CO2", "SOIL CARBON", "RESPONSES"]}, "links": [{"href": "https://www.nature.com/articles/s41467-019-08348-1.pdf"}, {"href": "https://arrow.tudublin.ie/context/scschbioart/article/1214/viewcontent/nature.pdf"}, {"href": "https://escholarship.org/content/qt5m5806sh/qt5m5806sh.pdf"}, {"href": "https://doi.org/10.1038/s41467-019-08348-1"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Nature%20Communications", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1038/s41467-019-08348-1", "name": "item", "description": "10.1038/s41467-019-08348-1", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1038/s41467-019-08348-1"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-02-14T00:00:00Z"}}, {"id": "10.1073/pnas.2308516120", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:18:12Z", "type": "Journal Article", "created": "2023-12-21", "title": "Radiation and temperature drive diurnal variation of aerobic methane emissions from Scots pine canopy", "description": "

Methane emissions from plant foliage may play an important role in the global methane cycle, but their size and the underlying source processes remain poorly understood. Here, we quantify methane fluxes from the shoots of Scots pine trees, a dominant tree species in boreal forests, to identify source processes and environmental drivers, and we evaluate whether these fluxes can be constrained at the ecosystem-level by eddy covariance flux measurements. We show that shoot-level measurements conducted in forest, garden, or greenhouse settings; on mature trees and saplings; manually and with an automated CO 2 -, temperature-, and water-controlled chamber system; and with multiple methane analyzers all resulted in comparable daytime fluxes (0.144 \uffc2\uffb1 0.019 to 0.375 \uffc2\uffb1 0.074 nmol CH 4 g \uffe2\uff88\uff921 foliar d.w. h \uffe2\uff88\uff921 ). We further find that these emissions exhibit a pronounced diurnal cycle that closely follows photosynthetically active radiation and is further modulated by temperature. These diurnal patterns indicate that methane production is associated with diurnal cycle of sunlight, indicating that this production is either a byproduct of photosynthesis-associated biochemical reactions (e.g., the methionine cycle) or produced through nonenzymatic photochemical reactions in plant biomass. Moreover, we identified a light-dependent component in stand-level methane fluxes, which showed order-of-magnitude agreement with shoot-level measurements (0.968 \uffc2\uffb1 0.031 nmol CH 4 g \uffe2\uff88\uff921 h \uffe2\uff88\uff921 ) and which provides an upper limit for shoot methane emissions. Correlative studies have shown a \uffe2\uff80\uff98hump\uffe2\uff80\uff90backed\uffe2\uff80\uff99 relation between the vegetation N:P ratio and plant species diversity with the highest diversity at balanced N:P ratios (between 10 and 14). We tested the hypothesis that adding growth\uffe2\uff80\uff90limiting nutrients to mesotrophic grasslands that were in shortage of either N (N:P ratio<10) or P (N:P ratio>14) would lead to an increase of plant diversity. Thereto, we studied the effects of long\uffe2\uff80\uff90term (11 yr) experimentally increased N and/or P supply on soil nutrient pools, vegetation nutrient dynamics and biodiversity in a riverine grassland in the Netherlands with a low soil N:P ratio (N shortage) and a peat grassland with a high soil N:P ratio (P shortage), respectively. Eleven years of nutrient addition hardly had any effects on the total stocks of C, N and P in the soils of both sites, due to the large size of the soil nutrient pools already present and to the management at both sites (annual hay\uffe2\uff80\uff90making and \uffe2\uff80\uff90removal). However, in the riverine grassland the treatments increased the cycling of the small pool of labile N and P compounds resulting in large increases in annual fluxes of especially N. In the unfertilised controls, species establishments balanced more or less species losses during an 11 year period, thus leading to a dynamic equilibrium of the species pool. However, contrary to our hypothesis, addition of the growth\uffe2\uff80\uff90limiting nutrient led at both sites to a reduction of species diversity even when total biomass remained below critical levels. Species diversity and species evenness were strongly determined by N mineralisation and to a lesser extent by total soil N and extractable P, respectively. Total aboveground biomass of the vegetation was determined by total soil N.

Our study shows that patterns found in correlative studies of the relation between plant diversity and soil and vegetation N:P ratio can not be translated into successful experimental manipulations to enhance biodiversity. The most likely explanation is that colonization limitation occurred in the fertilized plots and that not sufficient diaspores of potentially new species could reach and/or colonize the plots to compensate for the species extinctions as a result of increased nutrient supply.

", "keywords": ["0106 biological sciences", "2. Zero hunger", "Biologie/Milieukunde (BIOL)", "Plant Ecology", "0401 agriculture", " forestry", " and fisheries", "04 agricultural and veterinary sciences", "15. Life on land", "Plant biology (Botany)", "Life sciences", "01 natural sciences", "SDG 15 - Life on Land"]}, "links": [{"href": "https://doi.org/10.1034/j.1600-0706.2003.12223.x"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Oikos", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1034/j.1600-0706.2003.12223.x", "name": "item", "description": "10.1034/j.1600-0706.2003.12223.x", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1034/j.1600-0706.2003.12223.x"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2003-05-06T00:00:00Z"}}, {"id": "10.1038/35040544", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:17:44Z", "type": "Journal Article", "created": "2002-07-26", "title": "Elevated Co2 Increases Productivity And Invasive Species Success In An Arid Ecosystem", "description": "Arid ecosystems, which occupy about 20% of the earth's terrestrial surface area, have been predicted to be one of the most responsive ecosystem types to elevated atmospheric CO2 and associated global climate change. Here we show, using free-air CO2 enrichment (FACE) technology in an intact Mojave Desert ecosystem, that new shoot production of a dominant perennial shrub is doubled by a 50% increase in atmospheric CO2 concentration in a high rainfall year. However, elevated CO2 does not enhance production in a drought year. We also found that above-ground production and seed rain of an invasive annual grass increases more at elevated CO2 than in several species of native annuals. Consequently, elevated CO2 might enhance the long-term success and dominance of exotic annual grasses in the region. This shift in species composition in favour of exotic annual grasses, driven by global change, has the potential to accelerate the fire cycle, reduce biodiversity and alter ecosystem function in the deserts of western North America.", "keywords": ["0106 biological sciences", "Fire cycle", "Environmental Indicators and Impact Assessment", "Invasive species", "Mojave desert", "Water availability", "Free-air CO2 enrichment (FACE)", "Plant Biology", "04 agricultural and veterinary sciences", "Carbon Dioxide", "Plants", "15. Life on land", "Poaceae", "01 natural sciences", "13. Climate action", "Climate change", "0401 agriculture", " forestry", " and fisheries", "Elevated CO2", "Grasses", "Desert Climate", "Rosales", "Ecosystem", "Nevada"]}, "links": [{"href": "https://doi.org/10.1038/35040544"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Nature", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1038/35040544", "name": "item", "description": "10.1038/35040544", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1038/35040544"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2000-11-01T00:00:00Z"}}, {"id": "10.5281/zenodo.4541586", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:23:34Z", "type": "Dataset", "title": "SoilKsatDB: global compilation of soil saturated hydraulic conductivity measurements for geoscience applications", "description": "Open AccessA total of 13,258 Ksat measurements from 1,908 sites were assembled from the published literature and other sources, standardized, and quality-checked in order to obtain a global database of soil saturated hydraulic conductivity (SoilKsatDB). The SoilKsatDB covers most global regions, with the highest data density from North America, followed by Europe, Asia, South America, Africa, and Australia. In addition to Ksat, other soil variables such as soil texture (11,584 measurements), bulk density (11,262 measurements), soil organic carbon (9,787 measurements), field capacity (7,382) and wilting point (7,411) are also included in the data set. To cite this dataset please use: Gupta, S., Hengl, T., Lehmann, P., Bonetti, S., and Or, D.: SoilKsatDB: global soil saturated hydraulic conductivity measurements for geoscience applications, Earth Syst. Sci. Data Discuss., https://doi.org/10.5194/essd-2020-149, in review, 2021. Examples of using the SoilKsatDB to generate global maps of Ksat can be found in: Gupta, S., Hengl, T., Lehmann, P., Bonetti, S., Papritz, A. and Or, D. (2021): Global prediction of soil saturated hydraulic conductivity using random forest in a Covariate-based Geo Transfer Functions (CoGTF) framework. accepted for publication in Journal of Advances in Modeling Earth Systems (JAMES). Importing and binding steps are described in detail here. To report an issue or bug please use this link. Ksat data tutorial explaining how to access and use data is available here. In the following, we introduce two different file packages, one for the soil saturated hydraulic conductivity (\u201csol_ksat\u201d) and another one collecting additional soil hydraulic properties (\u201csol_hydro\u201d) as well that will be extended in the near future. Note that the package \u201csol_hydro\u201d is not related to the publication listed above (Gupta et al., 2021a). Description of the files: The datasets in this repository include: sol_ksat.pnts_horizons.***: provides a global compilation of Ksat values and the information described in Table 2 in Gupta et al., (2020). This data is provided in three different data formats. sol_ksat.pnts_horizons.arff, sol_ksat.pnts_horizons.csv.gz, sol_ksat.pnts_horizons.rds, sol_ksat.pnts_metadata_cl_pedo.csv: provides meta-information with Ksat methods and information of estimated soil pedologic unit and climatic region for each Ksat sample. sol_ksat.points_horizons_rm.rds: All ksat values overlaid on climatic, topographic, and vegetation based remote sensing data and extracted the corresponding values. These datasets can be used for spatial modeling for the future. In addition to Ksat points, add these files here as well for the reader that is interested in this topic. sol_hydro.pnts_horizons.***: provides water retention curve values and other soil hydraulic properties. This data is provided in three different data formats. sol_hydro.pnts_horizons.arff, sol_hydro.pnts_horizons.csv.gz, sol_hydro.pnts_horizons.rds, sol_hydro.pnts_horizons_rm.rds: All soil hydraulic values overlaid on climatic, topographic, and vegetation based remote sensing data and extracted the corresponding values. These datasets can be used for spatial modeling for the future. SoilKsatDB is available in CSV, ARFF and RDS formats. ARFF was prepared using the farff package for R. ARFF' (Attribute-Relation File Format) files are like 'CSV' files, with a little bit of added meta information in a header and standardized NA values. Column codes are based on the National Cooperative Soil Survey (NCSS) Soil Characterization Database naming convention (see 'README.pdf' for explanation of codes). The SoilKsatDB is a compilation of numerous existing datasets from which the most significant: SWIG data set (Rahmati et al., 2018), UNSODA (Leij et al., 1996), and HYBRAS (Ottoni et al., 2018). Full list of data sources for Ksat data is available in Gupta et al (2021) and in the Readme.pdf.", "keywords": ["Ecology", "Science Policy", "Information Systems not elsewhere classified", "Plant Biology", "hydrology", "clay", "15. Life on land", "Microbiology", "6. Clean water", "soil", "Sociology", "LandGIS", "OpenLandMap", "Genetics", "hydraulic conductivity", "Biological Sciences not elsewhere classified"], "contacts": [{"organization": "Surya, Gupta, Hengl, Tomislav, Lehmann, Peter, Bonetti, Sara, Or, Dani,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5281/zenodo.4541586"}, {"rel": "self", "type": "application/geo+json", "title": "10.5281/zenodo.4541586", "name": "item", "description": "10.5281/zenodo.4541586", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5281/zenodo.4541586"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-01-01T00:00:00Z"}}, {"id": "10.1038/s41586-023-05791-5", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:17:51Z", "type": "Journal Article", "created": "2023-03-08", "title": "The giant diploid faba genome unlocks variation in a global protein crop", "description": "Abstract

Increasing the proportion of locally produced plant protein in currently meat-rich diets could substantially reduce greenhouse gas emissions and loss of biodiversity1. However, plant protein production is hampered by the lack of a cool-season legume equivalent to soybean in agronomic value2. Faba bean (Vicia fabaL.) has a high yield potential and is well suited for cultivation in temperate regions, but genomic resources are scarce. Here, we report a high-quality chromosome-scale assembly of the faba bean genome and show that it has expanded to a massive 13\uffe2\uff80\uff89Gb in size through an imbalance between the rates of amplification and elimination of retrotransposons and satellite repeats. Genes and recombination events are evenly dispersed across chromosomes and the gene space is remarkably compact considering the genome size, although with substantial copy number variation driven by tandem duplication. Demonstrating practical application of the genome sequence, we develop a targeted genotyping assay and use high-resolution genome-wide association analysis to dissect the genetic basis of seed size and hilum colour. The resources presented constitute a genomics-based breeding platform for faba bean, enabling breeders and geneticists to accelerate the\uffc2\uffa0improvement of sustainable protein production across the\uffc2\uffa0Mediterranean, subtropical and northern temperate agroecological zones.Soil salinity, in both natural and managed environments, is highly heterogeneous, and understanding how plants respond to this spatiotemporal heterogeneity is increasingly important for sustainable agriculture in the era of global climate change. While the vast majority of research on crop response to salinity utilizes homogeneous saline conditions, a much smaller, but important, effort has been made in the past decade to understand plant molecular and physiological responses to heterogeneous salinity mainly by using split-root studies. These studies have begun to unravel how plants compensate for water/nutrient deprivation and limit salt stress by optimizing root-foraging in the most favourable parts of the soil.

Scope

This paper provides an overview of the patterns of salinity heterogeneity in rain-fed and irrigated systems. We then discuss results from split-root studies and the recent progress in understanding the physiological and molecular mechanisms regulating plant responses to heterogeneous root-zone salinity and nutrient conditions. We focus on mechanisms by which plants (salt/nutrient sensing, root-shoot signalling and water uptake) could optimize the use of less-saline patches within the root-zone, thereby enhancing growth under heterogeneous soil salinity conditions. Finally, we place these findings in the context of defining future research priorities, possible irrigation management and crop breeding opportunities to improve productivity from salt-affected lands.

", "keywords": ["Nutrient heterogeneity", "Water uptake", "Root-to-shoot signalling", "Salinity", "550", "Plant Biology & Botany", "Plant Biology", "Irrigation; nutrient heterogeneity; phytohormones; root foraging; root-to-shoot signalling; salt sensing; stomatal conductance; water uptake", "Stomatal conductance", "Salt sensing", "Plant Roots", "630", "12. Responsible consumption", "root foraging", "Soil", "Irrigation", "salt sensing", "Root foraging", "580", "2. Zero hunger", "Ecology", "Forestry Sciences", "Research", "nutrient heterogeneity", "Water", "15. Life on land", "6. Clean water", "root-to-shoot signalling", "phytohormones", "Phytohormones", "stomatal conductance", "13. Climate action", "Zero Hunger", "water uptake"]}, "links": [{"href": "https://eprints.lancs.ac.uk/id/eprint/166913/1/21783_2_merged_1643798007.pdf"}, {"href": "https://academic.oup.com/aob/article-pdf/129/5/499/43374309/mcac022.pdf"}, {"href": "https://escholarship.org/content/qt7t32v7cc/qt7t32v7cc.pdf"}, {"href": "https://doi.org/10.1093/aob/mcac022"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Annals%20of%20Botany", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1093/aob/mcac022", "name": "item", "description": "10.1093/aob/mcac022", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1093/aob/mcac022"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-02-16T00:00:00Z"}}, {"id": "10.1093/plcell/koac263", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:18:30Z", "type": "Journal Article", "created": "2022-08-26", "title": "Burning questions for a warming and changing world: 15 unknowns in plant abiotic stress", "description": "Abstract

We present unresolved questions in plant abiotic stress biology as posed by 15 research groups with expertise spanning eco-physiology to cell and molecular biology. Common themes of these questions include the need to better understand how plants detect water availability, temperature, salinity, and rising carbon dioxide (CO2) levels; how environmental signals interface with endogenous signaling and development (e.g. circadian clock and flowering time); and how this integrated signaling controls downstream responses (e.g. stomatal regulation, proline metabolism, and growth versus defense balance). The plasma membrane comes up frequently as a site of key signaling and transport events (e.g. mechanosensing and lipid-derived signaling, aquaporins). Adaptation to water extremes and rising CO2 affects hydraulic architecture and transpiration, as well as root and shoot growth and morphology, in ways not fully understood. Environmental adaptation involves tradeoffs that limit ecological distribution and crop resilience in the face of changing and increasingly unpredictable environments. Exploration of plant diversity within and among species can help us know which of these tradeoffs represent fundamental limits and which ones can be circumvented by bringing new trait combinations together. Better defining what constitutes beneficial stress resistance in different contexts and making connections between genes and phenotypes, and between laboratory and field observations, are overarching challenges.Organic carbon (OC) and nitrogen (N) storage in soil plays an important role in global climate change and in maintaining food security. Pollution of soil with heavy metals has occurred in many parts of the world, but their effects on soil OC and N have not been well addressed. Relevant data were extracted from peer\uffe2\uff80\uff90reviewed journal papers and analysed by a meta\uffe2\uff80\uff90analysis to determine how long\uffe2\uff80\uff90term heavy metal pollution affected soil OC and N status. Plant biomass decreased significantly because heavy metals in soil decreased soil OC and N concentrations by 5.0 and 17.9%, respectively, but increased the C/N ratio by 5.1%. The largest reductions in soil OC and N concentrations were in soil more strongly polluted by metals. The changes in soil OC and N with metal pollution varied with climatic conditions. More substantial decreases in OC and N concentrations were likely to occur in polluted soil with large background contents of OC and low pH. Overall, heavy metals were linked to greater reductions in soil OC and N concentrations in natural ecosystems than in agro\uffe2\uff80\uff90ecosystems. These results provided a quantitative evaluation of the effects of heavy metal pollution on the decrease in soil C and N concentrations and, therefore, on global climate change. Further consideration should be given to changes in the cycling of C and N in soil polluted with metals in natural and agro\uffe2\uff80\uff90ecosystems.

", "keywords": ["2. Zero hunger", "anzsrc-for: 0503 Soil Sciences", "550", "anzsrc-for: 4105 Pollution and Contamination", "anzsrc-for: 0703 Crop and Pasture Production", "anzsrc-for: 4106 Soil sciences", "04 agricultural and veterinary sciences", "41 Environmental Sciences", "15. Life on land", "01 natural sciences", "6. Clean water", "anzsrc-for: 41 Environmental Sciences", "anzsrc-for: 0607 Plant Biology", "4105 Pollution and Contamination", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1111/ejss.12327"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/European%20Journal%20of%20Soil%20Science", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/ejss.12327", "name": "item", "description": "10.1111/ejss.12327", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/ejss.12327"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2016-03-01T00:00:00Z"}}, {"id": "10.1111/gcbb.12128", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:18:53Z", "type": "Journal Article", "created": "2013-10-31", "title": "Soil And Crop Response To Stover Removal From Rainfed And Irrigated Corn", "description": "Abstract

Excessive corn (Zea mays L.) stover removal for biofuel and other uses may adversely impact soil and crop production. We assessed the effects of stover removal at 0, 25, 50, 75, and 100% from continuous corn on water erosion, corn yield, and related soil properties during a 3\uffe2\uff80\uff90year study under irrigated and no\uffe2\uff80\uff90tillage management practice on a Ulysses silt loam at Colby, irrigated and strip till management practice on a Hugoton loam at Hugoton, and rainfed and no\uffe2\uff80\uff90tillage management practice on a Woodson silt loam at Ottawa in Kansas, USA. The slope of each soil was <1%. One year after removal, complete (100%) stover removal resulted in increased losses of sediment by 0.36\uffe2\uff80\uff930.47\uffc2\uffa0Mg\uffc2\uffa0ha\uffe2\uff88\uff921 at the irrigated sites, but, at the rainfed site, removal at rates as low as 50% resulted in increased sediment loss by 0.30\uffc2\uffa0Mg\uffc2\uffa0ha\uffe2\uff88\uff921 and sediment\uffe2\uff80\uff90associated carbon (C) by 0.29\uffc2\uffa0kg\uffc2\uffa0ha\uffe2\uff88\uff921. Complete stover removal reduced wet aggregate stability of the soil at the irrigated sites in the first year after removal, but, at the rainfed site, wet aggregate stability was reduced in all years. Stover removal at rates \uffe2\uff89\uffa5 50% resulted in reduced soil water content, increased soil temperature in summer by 3.5\uffe2\uff80\uff936.8\uffc2\uffa0\uffc2\uffb0C, and reduced temperature in winter by about 0.5\uffc2\uffa0\uffc2\uffb0C. Soil C pool tended to decrease and crop yields tended to increase with an increase in stover removal, but 3\uffc2\uffa0years after removal, differences were not significant. Overall, stover removal at rates \uffe2\uff89\uffa550% may enhance grain yield but may increase risks of water erosion and negatively affect soil water and temperature regimes in this region.

", "keywords": ["2. Zero hunger", "Plant Sciences", "Botany", "Life Sciences", "Plant Biology", "Agriculture", "04 agricultural and veterinary sciences", "Horticulture", "15. Life on land", "7. Clean energy", "irrigation", "333", "630", "6. Clean water", "soil aggregation", "Agronomy and Crop Sciences", "13. Climate action", "Other Plant Sciences", "0401 agriculture", " forestry", " and fisheries", "stover removal", "water erosion", "soil carbon", "Agricultural Science"]}, "links": [{"href": "https://doi.org/10.1111/gcbb.12128"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/GCB%20Bioenergy", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/gcbb.12128", "name": "item", "description": "10.1111/gcbb.12128", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/gcbb.12128"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-10-31T00:00:00Z"}}, {"id": "10.1111/j.1365-2389.2004.00665.x", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:18:55Z", "type": "Journal Article", "created": "2005-06-01", "title": "Effects Of Increasing Fire Frequency On Black Carbon And Organic Matter In Podzols Of Siberian Scots Pine Forests", "description": "Summary

Fires in boreal forests frequently convert organic matter in the organic layer to black carbon, but we know little of how changing fire frequency alters the amount, composition and distribution of black carbon and organic matter within soils, or affects podzolization. We compared black carbon and organic matter (organic carbon and nitrogen) in soils of three Siberian Scots pine forests with frequent, moderately frequent and infrequent fires.

Black carbon did not significantly contribute to the storage of organic matter, most likely because it is consumed by intense fires. We found 99% of black carbon in the organic layer; maximum stocks were 72\uffe2\uff80\uff83g\uffe2\uff80\uff83m\uffe2\uff88\uff922. Less intense fires consumed only parts of the organic layer and converted some organic matter to black carbon (>\uffe2\uff80\uff835\uffe2\uff80\uff83g\uffe2\uff80\uff83m\uffe2\uff88\uff922), whereas more intense fires consumed almost the entire organic layer. In the upper 0.25\uffe2\uff80\uff83m of the mineral soil, black carbon stocks were 0.1\uffe2\uff80\uff83g\uffe2\uff80\uff83m\uffe2\uff88\uff922 in the infrequent fire regime.

After fire, organic carbon and nitrogen in the organic layer accumulated with an estimated rate of 14.4\uffe2\uff80\uff83g\uffe2\uff80\uff83C\uffe2\uff80\uff83m\uffe2\uff88\uff922\uffe2\uff80\uff83year\uffe2\uff88\uff921 or 0.241\uffe2\uff80\uff83g\uffe2\uff80\uff83N\uffe2\uff80\uff83m\uffe2\uff88\uff922\uffe2\uff80\uff83year\uffe2\uff88\uff921. Maximum stocks 140\uffe2\uff80\uff83years after fire were 2190\uffe2\uff80\uff83g organic C\uffe2\uff80\uff83m\uffe2\uff88\uff922 and 40\uffe2\uff80\uff83g\uffe2\uff80\uff83N\uffe2\uff80\uff83m\uffe2\uff88\uff922, with no differences among fire regimes. With increasing fire frequency, stocks of organic carbon increased from 600 to 1100\uffe2\uff80\uff83g\uffe2\uff80\uff83m\uffe2\uff88\uff922 (0\uffe2\uff80\uff930.25\uffe2\uff80\uff83m). Stocks of nitrogen in the mineral soil were similar among the regimes (0.04\uffe2\uff80\uff83g\uffe2\uff80\uff83m\uffe2\uff88\uff922). We found that greater intensities of fire reduce amounts of organic matter in the organic layer but that the greater frequencies may slightly increase amounts in the mineral soil.

", "keywords": ["Crop and Pasture Production", "2. Zero hunger", "13. Climate action", "Soil Sciences", "Plant Biology", "0401 agriculture", " forestry", " and fisheries", "Agronomy & Agriculture", "04 agricultural and veterinary sciences", "15. Life on land", "01 natural sciences", "0105 earth and related environmental sciences"], "contacts": [{"organization": "Czimczik, CI, Schmidt, MWI, Schulze, E\u2010D,", "roles": ["creator"]}]}, "links": [{"href": "https://escholarship.org/content/qt2m28h4tt/qt2m28h4tt.pdf"}, {"href": "https://doi.org/10.1111/j.1365-2389.2004.00665.x"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/European%20Journal%20of%20Soil%20Science", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/j.1365-2389.2004.00665.x", "name": "item", "description": "10.1111/j.1365-2389.2004.00665.x", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/j.1365-2389.2004.00665.x"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2004-10-13T00:00:00Z"}}, {"id": "10.1111/nph.12333", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:19:13Z", "type": "Journal Article", "created": "2013-05-30", "title": "Cumulative Response Of Ecosystem Carbon And Nitrogen Stocks To Chronic Co2exposure In A Subtropical Oak Woodland", "description": "Summary

Rising atmospheric carbon dioxide (CO2) could alter the carbon (C) and nitrogen (N) content of ecosystems, yet the magnitude of these effects are not well known. We examined C and N budgets of a subtropical woodland after 11\uffc2\uffa0yr of exposure to elevated CO2.

We used open\uffe2\uff80\uff90top chambers to manipulate CO2 during regrowth after fire, and measured C, N and tracer 15N in ecosystem components throughout the experiment.

Elevated CO2 increased plant C and tended to increase plant N but did not significantly increase whole\uffe2\uff80\uff90system C or N. Elevated CO2 increased soil microbial activity and labile soil C, but more slowly cycling soil C pools tended to decline. Recovery of a long\uffe2\uff80\uff90term 15N tracer indicated that CO2 exposure increased N losses and altered N distribution, with no effect on N inputs.

Increased plant C accrual was accompanied by higher soil microbial activity and increased C losses from soil, yielding no statistically detectable effect of elevated CO2 on net ecosystem C uptake. These findings challenge the treatment of terrestrial ecosystems responses to elevated CO2 in current biogeochemical models, where the effect of elevated CO2 on ecosystem C balance is described as enhanced photosynthesis and plant growth with decomposition as a first\uffe2\uff80\uff90order response.

", "keywords": ["Soil organic matter", "Long term experiment", "Elevated atmospheric CO2", "Florida scrub oak", "Scrub oak", "Research", "Plant Sciences", "Aboveground biomass", "Plant Biology", "Microbial communities", "04 agricultural and veterinary sciences", "Carbon Cycling", "15. Life on land", "Forest productivity", "Soil carbon", "Rhizosphere processes", "Terrestrial ecosystems", "Dioxide enrichment", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "Elevated CO2", "Climate feedbacks", "Global change", "Subtropical woodland", "Nitrogen cycling"]}, "links": [{"href": "https://digitalcommons.odu.edu/context/biology_fac_pubs/article/1264/viewcontent/Day2013CumulativeResponseofEcosystemCarbonandNitrogenOCR.pdf"}, {"href": "https://doi.org/10.1111/nph.12333"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/New%20Phytologist", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/nph.12333", "name": "item", "description": "10.1111/nph.12333", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/nph.12333"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-05-30T00:00:00Z"}}, {"id": "10.1111/nph.14872", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:19:13Z", "type": "Journal Article", "created": "2017-11-06", "title": "Ecosystem responses to elevated CO2 governed by plant\u2013soil interactions and the cost of nitrogen acquisition", "description": "

Contents Summary 507 I. Introduction 507 II. The return on investment approach 508 III. CO2 response spectrum 510 IV. Discussion 516 Acknowledgements 518 References 518

Summary

Land ecosystems sequester on average about a quarter of anthropogenic CO2 emissions. It has been proposed that nitrogen (N) availability will exert an increasingly limiting effect on plants\uffe2\uff80\uff99 ability to store additional carbon (C) under rising CO2, but these mechanisms are not well understood. Here, we review findings from elevated CO2 experiments using a plant economics framework, highlighting how ecosystem responses to elevated CO2 may depend on the costs and benefits of plant interactions with mycorrhizal fungi and symbiotic N\uffe2\uff80\uff90fixing microbes. We found that N\uffe2\uff80\uff90acquisition efficiency is positively correlated with leaf\uffe2\uff80\uff90level photosynthetic capacity and plant growth, and negatively with soil C storage. Plants that associate with ectomycorrhizal fungi and N\uffe2\uff80\uff90fixers may acquire N at a lower cost than plants associated with arbuscular mycorrhizal fungi. However, the additional growth in ectomycorrhizal plants is partly offset by decreases in soil C pools via priming. Collectively, our results indicate that predictive models aimed at quantifying C cycle feedbacks to global change may be improved by treating N as a resource that can be acquired by plants in exchange for energy, with different costs depending on plant interactions with microbial symbionts.

Terrestrial primary productivity and carbon cycle impacts of droughts are commonly quantified using vapour pressure deficit (VPD) data and remotely sensed greenness, without accounting for soil moisture. However, soil moisture limitation is known to strongly affect plant physiology.

Here, we investigate light use efficiency, the ratio of gross primary productivity (GPP) to absorbed light. We derive its fractional reduction due to soil moisture (fLUE), separated from VPD and greenness changes, using artificial neural networks trained on eddy covariance data, multiple soil moisture datasets and remotely sensed greenness.

This reveals substantial impacts of soil moisture alone that reduce GPP by up to 40% at sites located in sub\uffe2\uff80\uff90humid, semi\uffe2\uff80\uff90arid or arid regions. For sites in relatively moist climates, we find, paradoxically, a muted fLUE response to drying soil, but reduced fLUE under wet conditions.

fLUE identifies substantial drought impacts that are not captured when relying solely on VPD and greenness changes and, when seasonally recurring, are missed by traditional, anomaly\uffe2\uff80\uff90based drought indices. Counter to common assumptions, fLUE reductions are largest in drought\uffe2\uff80\uff90deciduous vegetation, including grasslands. Our results highlight the necessity to account for soil moisture limitation in terrestrial primary productivity data products, especially for drought\uffe2\uff80\uff90related assessments.

Plants are recognized as sources of aerobically produced methane (CH4), but the seasonality, environmental drivers and significance of CH4 emissions from the canopies of evergreen boreal trees remain poorly understood.

We measured the CH4 fluxes from the shoots of Pinus sylvestris (Scots pine) and Picea abies (Norway spruce) saplings in a static, non\uffe2\uff80\uff90steady\uffe2\uff80\uff90state chamber setup to investigate if the shoots of boreal conifers are a source of CH4 during spring.

We found that the shoots of Scots pine emitted CH4 and these emissions correlated with the photosynthetically active radiation. For Norway spruce, the evidence for CH4 emissions from the shoots was inconclusive.

Our study shows that the canopies of evergreen boreal trees are a potential source of CH4 in the spring and that these emissions are driven by a temperature\uffe2\uff80\uff90by\uffe2\uff80\uff90light interaction effect of solar radiation either directly or indirectly through its effects on tree physiological processes.

Aerenchymatic transport is an important mechanism through which plants affect methane (CH4) emissions from peatlands. Controlling environmental factors and the effects of plant phenology remain, however, uncertain.

We identified factors controlling seasonal CH4 flux rate and investigated transport efficiency (flux rate per unit of rhizospheric porewater CH4 concentration). We measured CH4 fluxes through individual shoots of Carex rostrata, Menyanthes trifoliata, Betula nana and Salix lapponum throughout growing seasons in 2020 and 2021 and Equisetum fluviatile and Comarum palustre in high summer 2021 along with water\uffe2\uff80\uff90table level, peat temperature and porewater CH4 concentration.

CH4 flux rate of C. rostrata was related to plant phenology and peat temperature. Flux rates of M. trifoliata and shrubs B. nana and S. lapponum were insensitive to the investigated environmental variables. In high summer, flux rate and efficiency were highest for C. rostrata (6.86\uffe2\uff80\uff89mg\uffe2\uff80\uff89m\uffe2\uff88\uff922\uffc2\uffa0h\uffe2\uff88\uff921 and 0.36\uffe2\uff80\uff89mg\uffe2\uff80\uff89m\uffe2\uff88\uff922\uffc2\uffa0h\uffe2\uff88\uff921 (\uffce\uffbcmol\uffe2\uff80\uff89l\uffe2\uff88\uff921)\uffe2\uff88\uff921, respectively). Menyanthes trifoliata showed a high flux rate, but limited efficiency. Low flux rates and efficiency were detected for the remaining species.

Knowledge of the species\uffe2\uff80\uff90specific CH4 flux rate and their different responses to plant phenology and environmental factors can significantly improve the estimation of ecosystem\uffe2\uff80\uff90scale CH4 dynamics in boreal peatlands.

Plants have evolved different mechanisms to disperse from parent plants and improve germination to sustain their survival. The study of seed dispersal mechanisms, with the related structural and functional characteristics, is an active research topic for ecology, plant diversity, climate change, as well as for its relevance for material science and engineering. The natural mechanisms of seed dispersal show a rich source of robust, highly adaptive, mass and energy efficient mechanisms for optimized passive flying, landing, crawling and drilling. The secret of seeds mobility is embodied in the structural features and anatomical characteristics of their tissues, which are designed to be selectively responsive to changes in the environmental conditions, and which make seeds one of the most fascinating examples of morphological computation in Nature. Particularly clever for their spatial mobility performance, are those seeds that use their morphology and structural characteristics to be carried by the wind and dispersed over great distances (i.e. \uffe2\uff80\uff9cwinged\uffe2\uff80\uff9d and \uffe2\uff80\uff9cparachute\uffe2\uff80\uff9d seeds), and seeds able to move and penetrate in soil with a self-burial mechanism driven by their hygromorphic properties and morphological features. By looking at their motion mechanisms, new design principles can be extracted and used as inspiration for smart artificial systems endowed with embodied intelligence. This mini-review systematically collects, for the first time together, the morphological, structural, biomechanical and aerodynamic information from selected plant seeds relevant to take inspiration for engineering design of soft robots, and discusses potential future developments in the field across material science, plant biology, robotics and embodied intelligence.

", "keywords": ["soft robotics", "plant biology", "Robotics and AI", "0301 basic medicine", "0303 health sciences", "bioinspired robotics", " soft robotics", " embodied intelligence", " plant biology", " smart materials", " plant biomechanics", " seeds dispersal", "embodied intelligence", "QA75.5-76.95", "15. Life on land", "03 medical and health sciences", "13. Climate action", "smart materials", "plant biomechanics", "Electronic computers. Computer science", "TJ1-1570", "bioinspired robotics", "Mechanical engineering and machinery"]}, "links": [{"href": "https://doi.org/10.3389/frobt.2021.797556"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Frontiers%20in%20Robotics%20and%20AI", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3389/frobt.2021.797556", "name": "item", "description": "10.3389/frobt.2021.797556", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/frobt.2021.797556"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-11-26T00:00:00Z"}}, {"id": "10.1890/02-3005", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:20:03Z", "type": "Journal Article", "created": "2007-06-04", "title": "Co-2 Enrichment Reduces The Energetic Cost Of Biomass Construction In An Invasive Desert Grass", "description": "To examine how global change could influence species invasions, we compared the responses of energetic processes and growth of invasive and native grass species to atmospheric CO2 enrichment in an intact Mojave Desert ecosystem. Combined with its modest influence on photosynthetic activity, elevated atmospheric CO2 was associated with a significant reduction in the energetic cost of aboveground biomass construction in invasive Bromus madritensis spp. rubens (red brome) without a concurrent cost reduction in native Vulpia octoflora (six-weeks fescue). Consequently, the invasive grass species grew faster, grew bigger, and produced more seeds with atmospheric CO2 enrichment than the native grass species. As a physiological mechanism of invasive species success driven by CO2 enrichment, such alterations in biomass construction costs combined with increased photosynthetic activity could trigger a shift in the species composition of this ecosystem, and potentially that of other invaded ecosystems, toward increa...", "keywords": ["0106 biological sciences", "2. Zero hunger", "Bromus madritensis spp. rubens", "Invasive species", "Invasive grasses", "Red brome", "Systems Biology", "Plant Biology", "Native grasses", "NDFF", "Weed Science", "15. Life on land", "01 natural sciences", "Mojave Desert", "Vulpia octoflora", "Relative growth rate", "13. Climate action", "Energetics", "Six-weeks fescue", "Construction cost", "Elevated CO2", "Photosynthesis", "Nevada"]}, "links": [{"href": "https://doi.org/10.1890/02-3005"}, {"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": "10.1890/02-3005", "name": "item", "description": "10.1890/02-3005", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1890/02-3005"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2004-01-01T00:00:00Z"}}, {"id": "10.2134/agronj2016.07.0402", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:20:16Z", "type": "Journal Article", "created": "2016-12-01", "title": "Soil Total Carbon And Crop Yield Affected By Crop Rotation And Cultural Practice", "description": "Core Ideas

Stacked crop rotation and improved cultural practice can control pests.

The effects of such management practices on soil total carbon is lacking.

Effects of crop rotation and cultural practice on STC and crop yield were evaluated.

Crop yield and STC at several depths were lower in stacked than other rotations.

Alternate\uffe2\uff80\uff90year rotation may enhance crop yield and STC compared to other rotations.

Stacked crop rotations and improved cultural practices have been used to control pests, but their impact on soil total carbon (STC) (soil organic carbon [SOC] + soil inorganic carbon [SIC]) and crop yield are lacking. We evaluated the effects of stacked vs. alternate\uffe2\uff80\uff90year rotations and cultural practices on STC at the 0\uffe2\uff80\uff90 to 125\uffe2\uff80\uff90cm depth and annualized crop yields from 2005 to 2011 in the northern Great Plains. Stacked rotations were durum (Triticum turgidum L.)\uffe2\uff80\uff93durum\uffe2\uff80\uff93canola (Brassica napus L.)\uffe2\uff80\uff93pea (Pisum sativum L.) (D\uffe2\uff80\uff93D\uffe2\uff80\uff93C\uffe2\uff80\uff93P) and durum\uffe2\uff80\uff93durum\uffe2\uff80\uff93flax (Linum usitatissimum L.)\uffe2\uff80\uff93pea (D\uffe2\uff80\uff93D\uffe2\uff80\uff93F\uffe2\uff80\uff93P). Alternate\uffe2\uff80\uff90year rotations were durum\uffe2\uff80\uff93canola\uffe2\uff80\uff93durum\uffe2\uff80\uff93pea (D\uffe2\uff80\uff93C\uffe2\uff80\uff93D\uffe2\uff80\uff93P) and durum\uffe2\uff80\uff93flax\uffe2\uff80\uff93durum\uffe2\uff80\uff93pea (D\uffe2\uff80\uff93F\uffe2\uff80\uff93D\uffe2\uff80\uff93P). A continuous durum (CD) was used as a reference. Cultural practices were traditional (conventional till, recommended seed rate, broadcast N fertilization, and reduced stubble height) and ecological (no\uffe2\uff80\uff90till, increased seed rate, banded N fertilization, and increased stubble height) treatments. Annualized crop biomass residue returned to the soil and grain yield were greater with D\uffe2\uff80\uff93C\uffe2\uff80\uff93D\uffe2\uff80\uff93P and D\uffe2\uff80\uff93D\uffe2\uff80\uff93C\uffe2\uff80\uff93P than D\uffe2\uff80\uff93D\uffe2\uff80\uff93F\uffe2\uff80\uff93P and greater with the ecological than the traditional practice. The STC concentration increased with depth and was greater with CD and D\uffe2\uff80\uff93C\uffe2\uff80\uff93D\uffe2\uff80\uff93P than D\uffe2\uff80\uff93D\uffe2\uff80\uff93C\uffe2\uff80\uff93P and D\uffe2\uff80\uff93D\uffe2\uff80\uff93F\uffe2\uff80\uff93P in traditional and ecological practices at 20 to 50 cm. At 50 to 88 cm, STC concentration was greater with D\uffe2\uff80\uff93F\uffe2\uff80\uff93D\uffe2\uff80\uff93P than D\uffe2\uff80\uff93D\uffe2\uff80\uff93F\uffe2\uff80\uff93P in the traditional practice. At 0 to 125 cm, STC content was lower with D\uffe2\uff80\uff90D\uffe2\uff80\uff90F\uffe2\uff80\uff90P than other crop rotations. Stacked rotations, especially D\uffe2\uff80\uff93D\uffe2\uff80\uff93F\uffe2\uff80\uff93P, reduced soil C storage and crop yields compared with alternate\uffe2\uff80\uff90year rotations. For enhancing soil C storage and crop yields, alternate\uffe2\uff80\uff90year crop rotations are recommended.

", "keywords": ["0106 biological sciences", "2. Zero hunger", "Agronomy and Crop Sciences", "13. Climate action", "Plant Biology", "0401 agriculture", " forestry", " and fisheries", "04 agricultural and veterinary sciences", "15. Life on land", "Agricultural Science", "01 natural sciences", "630"], "contacts": [{"organization": "Sainju, Upendra, Lenssen, Andrew, Allen, Brett, Stevens, William, Jabro, Jalal,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.2134/agronj2016.07.0402"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Agronomy%20Journal", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.2134/agronj2016.07.0402", "name": "item", "description": "10.2134/agronj2016.07.0402", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.2134/agronj2016.07.0402"}, {"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": "10.2134/jeq2003.2300", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:20:17Z", "type": "Journal Article", "created": "2012-08-02", "description": "ABSTRACT

Understanding how carbon, nitrogen, and key soil attributes affect gas emissions from soil is crucial for alleviating their undesirable residual effects that can linger for years after termination of manure and compost applications. This study was conducted to evaluate the emission of soil CO2, N2O, and CH4 and soil C and N indicators four years after manure and compost application had stopped. Experimental plots were treated with annual synthetic N fertilizer (FRT), annual and biennial manure (MN1 and MN2, respectively), and compost (CP1 and CP2, respectively) from 1992 to 1995 based on removal of 151 kg N ha\uffe2\uff88\uff921 yr\uffe2\uff88\uff921 by continuous corn (Zea mays L.). The control (CTL) plots received no input. After 1995, only the FRT plots received N fertilizer in the spring of 1999. In 1999, the emissions of CO2 were similar between control and other treatments. The average annual carbon input in the CTL and FRT plots were similar to soil CO2\uffe2\uff80\uff93C emission (4.4 and 5.1 Mg C ha\uffe2\uff88\uff921 yr\uffe2\uff88\uff921, respectively). Manure and compost resulted in positive C and N balances in the soil four years after application. Fluxes of CH4\uffe2\uff80\uff93C and N2O\uffe2\uff80\uff90N were nearly zero, which indicated that the residual effects of manure and compost four years after application had no negative influence on soil C and N storage and global warming. Residual effects of compost and manure resulted in 20 to 40% higher soil microbial biomass C, 42 to 74% higher potentially mineralizable N, and 0.5 unit higher pH compared with the FRT treatment. Residual effects of manure and compost on CO2, N2O, and CH4 emissions were minimal and their benefits on soil C and N indicators were more favorable than that of N fertilizer.

", "keywords": ["Greenhouse Effect", "Conservation of Natural Resources", "Time Factors", "Nitrogen", "Nitrous Oxide", "Plant Biology", "Horticulture", "Zea mays", "630", "333", "Agronomy and Crop Sciences", "Biomass", "Agricultural Science", "Fertilizers", "Plant Sciences", "Botany", "Life Sciences", "Agriculture", "04 agricultural and veterinary sciences", "Carbon Dioxide", "15. Life on land", "6. Clean water", "Refuse Disposal", "Manure", "13. Climate action", "Other Plant Sciences", "0401 agriculture", " forestry", " and fisheries", "Methane", "Environmental Monitoring"], "contacts": [{"organization": "Ginting, Daniel, Kessavalou, Anabayan, Eghball, Bahman, Doran, John W.,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.2134/jeq2003.2300"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20Environmental%20Quality", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.2134/jeq2003.2300", "name": "item", "description": "10.2134/jeq2003.2300", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.2134/jeq2003.2300"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2003-01-01T00:00:00Z"}}, {"id": "10.2478/jofnem-2023-0006", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:20:42Z", "type": "Journal Article", "created": "2023-04-22", "title": "18S-NemaBase: Curated 18S rRNA Database of Nematode Sequences", "description": "Abstract

Nematodes are the most abundant and diverse animals on the planet but lack representation in biodiversity research. This presents a problem for studying nematode diversity, particularly when molecular tools (i.e., barcoding and metabarcoding) rely on well-populated and curated reference databases, which are absent for nematodes. To improve molecular identification and the assessment of nematode diversity, we created and curated an 18S rRNA database specific to nematodes (18S-NemaBase) using sequences sourced from the most recent publicly available 18S rRNA SILVA v138 database. As part of the curation process, taxonomic strings were standardized to contain a fixed number of taxonomic ranks relevant to nematology and updated for the most recent accepted nematode classifications. In addition, apparent erroneous sequences were removed. To test the efficacy and accuracy of 18S-NemaBase, we compared it to an older but also curated SILVA v111 and the newest SILVA v138 by assigning taxonomies and analyzing the diversity of a nematode dataset from the Western Nebraska Sandhills. We showed that 18S-NemaBase provided more accurate taxonomic assignments and diversity assessments than either version of SILVA, with a much easier workflow and no need for manual corrections. Additionally, observed diversity further improved when 18S-NemaBase was supplemented with reference sequences from nematodes present in the study site. Although the 18S-NemaBase is a step in the right direction, a concerted effort to increase the number of high-quality, accessible, full-length nematode reference sequences is more important now than ever.Compared with purpose-built units, excavator-based harvesters offer many advantages, but they also face one main limitation: a much higher fuel consumption, which also results in higher CO2 emission levels. The fuel efficiency of excavator-based harvesters can be increased by a better interface between the excavator and the harvester head. This study aimed to determine the performance of a new adaptation kit, specifically designed to improve the communication between these two components. The new kit offers real-time adjustment between the power demand of the harvester head and the power output of the excavator, which should help reducing fuel consumption while stabilizing hydraulic fluid temperature. The test was conducted on 53 excavator-based harvesters purchased and managed by a large Brazilian company. Time use, fuel consumption and production were monitored continuously for one full month, before and after installation of the kit. Overall, the study covered 40,000 h of work, during which the harvesters cut, processed, and debarked 4.5 million trees, or 650,000 m3 of wood, under bark. Fuel consumption amounted to 900,000 liters. After installing the adaptation kit, productivity increased 6%, while fuel consumption per hour decreased 3.5%. Fuel consumption and CO2 emissions per product unit decreased 10%, as an average. The effect of random variability typical of an observational study prevented formulating an accurate figure for the amount of fuel that can be saved by installing the adaptation kit. Yet, one may confidently state that, in most cases, installing the kit results in a reduction of fuel use, and that such reduction is most often in the range from \uffe2\uff88\uff9210 to \uffe2\uff88\uff9220% on a per m3 basis.

", "keywords": ["productivity", "logging; productivity; eucalypt; plantation; Brazil", "600", "plantation", "04 agricultural and veterinary sciences", "7. Clean energy", "FoR 0607 (Plant Biology)", "logging", "12. Responsible consumption", "eucalypt", "13. Climate action", "8. Economic growth", "FoR 0705 (Forestry Sciences)", "0401 agriculture", " forestry", " and fisheries", "FoR 0602 (Ecology)", "Brazil"]}, "links": [{"href": "http://www.mdpi.com/1999-4907/10/1/43/pdf"}, {"href": "https://doi.org/10.3390/f10010043"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Forests", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/f10010043", "name": "item", "description": "10.3390/f10010043", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/f10010043"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-01-09T00:00:00Z"}}, {"id": "10.3390/f7020045", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:21:05Z", "type": "Journal Article", "created": "2016-02-19", "description": "

Microbial-mediated decomposition and nutrient mineralization are major drivers of forest productivity. As landscape-scale fuel reduction treatments are being implemented throughout the fire-prone western United States of America, it is important to evaluate operationally how these wildfire mitigation treatments alter belowground processes. We quantified these important belowground components before and after management-applied fuel treatments of thinning alone, thinning combined with prescribed fire, and prescribed fire in ponderosa pine (Pinus ponderosa) stands at the Southwest Plateau, Fire and Fire Surrogate site, Arizona. Fuel treatments did not alter pH, total carbon and nitrogen (N) concentrations, or base cations of the forest floor (O horizon) or mineral soil (0\uffe2\uff80\uff935 cm) during this 2-year study. In situ rates of net N mineralization and nitrification in the surface mineral soil (0\uffe2\uff80\uff9315 cm) increased 6 months after thinning with prescribed fire treatments; thinning only resulted in net N immobilization. The rates returned to pre-treatment levels after one year. Based on phospholipid fatty acid composition, microbial communities in treated areas were similar to untreated areas (control) in the surface organic horizon and mineral soil (0\uffe2\uff80\uff935 cm) after treatments. Soil potential enzyme activities were not significantly altered by any of the three fuel treatments. Our results suggest that a variety of one-time alternative fuel treatments can reduce fire hazard without degrading soil fertility.

", "keywords": ["2. Zero hunger", "Ecology", "Life on Land", "fuel treatments", "13. Climate action", "Forestry Sciences", "fuel treatments; nitrification; nitrogen mineralization; phospholipid fatty acids; soil enzymes", "Plant Biology", "phospholipid fatty acids", "15. Life on land", "soil enzymes", "nitrification", "nitrogen mineralization"], "contacts": [{"organization": "Overby, Steven T, Hart, Stephen C,", "roles": ["creator"]}]}, "links": [{"href": "http://www.mdpi.com/1999-4907/7/2/45/pdf"}, {"href": "https://escholarship.org/content/qt54s4m5pt/qt54s4m5pt.pdf"}, {"href": "https://doi.org/10.3390/f7020045"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Forests", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/f7020045", "name": "item", "description": "10.3390/f7020045", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/f7020045"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2016-02-18T00:00:00Z"}}, {"id": "3124284276", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:26:31Z", "type": "Journal Article", "created": "2021-01-23", "title": "Inconsistent effects of agricultural practices on soil fungal communities across 12 European long\u2010term experiments", "description": "Abstract

Cropping practices have a great potential to improve soil quality through changes in soil biota. Yet the effects of these soil\uffe2\uff80\uff90improving cropping systems on soil fungal communities are not well known. Here, we analysed soil fungal communities using standardized measurements in 12 long\uffe2\uff80\uff90term experiments and 20 agricultural treatments across Europe. We were interested in whether the same practices (i.e., tillage, fertilization, organic amendments and cover crops) applied across different sites have predictable and repeatable effects on soil fungal communities and guilds. The fungal communities were very variable across sites located in different soil types and climatic regions. The arbuscular mycorrhizal fungi (AMF) were the fungal guild with most unique species in individual sites, whereas plant pathogenic fungi were most shared between the sites. The fungal communities responded to the cropping practices differently in different sites and only fertilization showed a consistent effect on AMF and plant pathogenic fungi, whereas the responses to tillage, cover crops and organic amendments were site, soil and crop\uffe2\uff80\uff90species specific. We further show that the crop yield is negatively affected by cropping practices aimed at improving soil health. Yet, we show that these practices have the potential to change the fungal communities and that change in plant pathogenic fungi and in AMF is linked to the yield. We further link the soil fungal community and guilds to soil abiotic characteristics and reveal that especially Mn, K, Mg and pH affect the composition of fungi across sites. In summary, we show that fungal communities vary considerably between sites and that there are no clear directional responses in fungi or fungal guilds across sites to soil\uffe2\uff80\uff90improving cropping systems, but that the responses vary based on soil abiotic conditions, crop type and climatic conditions.

Highlights

Soil fungi were analysed using standardized measurements in 12 long\uffe2\uff80\uff90term experiments and 20 agricultural treatments

Fungal communities responded to the cropping practices differently at different sites

Only reduced fertilization showed a consistent effect on AMF and plant pathogenic fungi, whereas the responses to tillage, cover crops and organic amendments were site specific.

Fungal community structure varied significantly between sites, crops and climate conditions; therefore, more cross\uffe2\uff80\uff90site studies are needed in order to manage beneficial soil fungi in agricultural systems.

Intercellular signalling is an indispensable part of multicellular life. Understanding the commonalities and differences in how signalling molecules function in two remote branches of the tree of life may shed light on the reasons these molecules were originally recruited for intercellular signalling. Here we review the plant function of three highly studied animal intercellular signalling molecules, namely glutamate, \u03b3-aminobutyric acid (GABA), and melatonin. By considering both their signalling function in plants and their broader physiological function, we suggest that molecules with an original function as key metabolites or active participants in reactive ion species scavenging have a high chance of becoming intercellular signalling molecules. Naturally, the evolution of machinery to transduce a message across the plasma membrane is necessary. This fact is demonstrated by three other well-studied animal intercellular signalling molecules, namely serotonin, dopamine, and acetylcholine, for which there is currently no evidence that they act as intercellular signalling molecules in plants.

", "keywords": ["0301 basic medicine", "0303 health sciences", "signalling molecules", "plant physiology", "QH301-705.5", "Science", "Q", "R", "Plant Biology", "Glutamic Acid", "Plants", "03 medical and health sciences", "Journal Article", "reactive ion species", "Medicine", "Animals", "comparative biology", "Biology (General)", "metabolism", "gamma-Aminobutyric Acid", "Melatonin", "Signal Transduction"]}, "links": [{"href": "https://doi.org/10.7554/elife.83361"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/eLife", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.7554/elife.83361", "name": "item", "description": "10.7554/elife.83361", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.7554/elife.83361"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-06-20T00:00:00Z"}}, {"id": "10.6084/m9.figshare.24091888.v1", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:24:29Z", "type": "Dataset", "created": "2023-09-06", "title": "What is the ecotoxicity of a given chemical for a given aquatic species? Predicting interactions between species and chemicals using recommender system techniques", "description": "Ecotoxicological safety assessment of chemicals requires toxicity data on multiple species, despite the general desire of minimizing animal testing. Predictive models, specifically machine learning (ML) methods, are one of the tools capable of solving this apparent contradiction as they allow to generalize toxicity patterns across chemicals and species. However, despite the availability of large public toxicity datasets, the data is highly sparse, complicating model development. The aim of this study is to provide insights into how ML can predict toxicity using a large but sparse dataset. We developed models to predict LC50-values, based on experimental LC50-data covering 2431 organic chemicals and 1506 aquatic species from the ECOTOX-database. Several well-known ML techniques were evaluated and a new ML model was developed, inspired by recommender systems. This new model involves a simple linear model that learns low-rank interactions between species and chemicals using factorization machines. We evaluated the predictive performances of the developed models based on two validation settings: 1) predicting unseen chemical-species pairs, and 2) predicting unseen chemicals. The results of this study show that ML models can accurately predict LC50-values in both validation settings. Moreover, we show that the novel factorization machine approach can match well-tuned, complex, ML approaches.", "keywords": ["Inorganic Chemistry", "Chemical Sciences not elsewhere classified", "Ecology", "FOS: Chemical sciences", "FOS: Biological sciences", "Information Systems not elsewhere classified", "Plant Biology", "Biochemistry", "Microbiology", "Biological Sciences not elsewhere classified", "Mathematical Sciences not elsewhere classified"], "contacts": [{"organization": "Viljanen, M., Minnema, J., Wassenaar, P.N.H., Rorije, E., Peijnenburg, W.,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.6084/m9.figshare.24091888.v1"}, {"rel": "self", "type": "application/geo+json", "title": "10.6084/m9.figshare.24091888.v1", "name": "item", "description": "10.6084/m9.figshare.24091888.v1", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.6084/m9.figshare.24091888.v1"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-01-01T00:00:00Z"}}, {"id": "10138/356895", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:24:44Z", "type": "Journal Article", "created": "2023-03-08", "title": "The giant diploid faba genome unlocks variation in a global protein crop", "description": "Abstract

Increasing the proportion of locally produced plant protein in currently meat-rich diets could substantially reduce greenhouse gas emissions and loss of biodiversity 1 . However, plant protein production is hampered by the lack of a cool-season legume equivalent to soybean in agronomic value 2 . Faba bean ( Vicia faba L.) has a high yield potential and is well suited for cultivation in temperate regions, but genomic resources are scarce. Here, we report a high-quality chromosome-scale assembly of the faba bean genome and show that it has expanded to a massive 13\uffe2\uff80\uff89Gb in size through an imbalance between the rates of amplification and elimination of retrotransposons and satellite repeats. Genes and recombination events are evenly dispersed across chromosomes and the gene space is remarkably compact considering the genome size, although with substantial copy number variation driven by tandem duplication. Demonstrating practical application of the genome sequence, we develop a targeted genotyping assay and use high-resolution genome-wide association analysis to dissect the genetic basis of seed size and hilum colour. The resources presented constitute a genomics-based breeding platform for faba bean, enabling breeders and geneticists to accelerate the\uffc2\uffa0improvement of sustainable protein production across the\uffc2\uffa0Mediterranean, subtropical and northern temperate agroecological zones. Contents Summary 507 I. Introduction 507 II. The return on investment approach 508 III. CO2 response spectrum 510 IV. Discussion 516 Acknowledgements 518 References 518

Summary

Land ecosystems sequester on average about a quarter of anthropogenic CO2 emissions. It has been proposed that nitrogen (N) availability will exert an increasingly limiting effect on plants\uffe2\uff80\uff99 ability to store additional carbon (C) under rising CO2, but these mechanisms are not well understood. Here, we review findings from elevated CO2 experiments using a plant economics framework, highlighting how ecosystem responses to elevated CO2 may depend on the costs and benefits of plant interactions with mycorrhizal fungi and symbiotic N\uffe2\uff80\uff90fixing microbes. We found that N\uffe2\uff80\uff90acquisition efficiency is positively correlated with leaf\uffe2\uff80\uff90level photosynthetic capacity and plant growth, and negatively with soil C storage. Plants that associate with ectomycorrhizal fungi and N\uffe2\uff80\uff90fixers may acquire N at a lower cost than plants associated with arbuscular mycorrhizal fungi. However, the additional growth in ectomycorrhizal plants is partly offset by decreases in soil C pools via priming. Collectively, our results indicate that predictive models aimed at quantifying C cycle feedbacks to global change may be improved by treating N as a resource that can be acquired by plants in exchange for energy, with different costs depending on plant interactions with microbial symbionts.

Terrestrial primary productivity and carbon cycle impacts of droughts are commonly quantified using vapour pressure deficit (VPD) data and remotely sensed greenness, without accounting for soil moisture. However, soil moisture limitation is known to strongly affect plant physiology.

Here, we investigate light use efficiency, the ratio of gross primary productivity (GPP) to absorbed light. We derive its fractional reduction due to soil moisture (fLUE), separated from VPD and greenness changes, using artificial neural networks trained on eddy covariance data, multiple soil moisture datasets and remotely sensed greenness.

This reveals substantial impacts of soil moisture alone that reduce GPP by up to 40% at sites located in sub\uffe2\uff80\uff90humid, semi\uffe2\uff80\uff90arid or arid regions. For sites in relatively moist climates, we find, paradoxically, a muted fLUE response to drying soil, but reduced fLUE under wet conditions.

fLUE identifies substantial drought impacts that are not captured when relying solely on VPD and greenness changes and, when seasonally recurring, are missed by traditional, anomaly\uffe2\uff80\uff90based drought indices. Counter to common assumptions, fLUE reductions are largest in drought\uffe2\uff80\uff90deciduous vegetation, including grasslands. Our results highlight the necessity to account for soil moisture limitation in terrestrial primary productivity data products, especially for drought\uffe2\uff80\uff90related assessments.

Plants are recognized as sources of aerobically produced methane (CH4), but the seasonality, environmental drivers and significance of CH4 emissions from the canopies of evergreen boreal trees remain poorly understood.

We measured the CH4 fluxes from the shoots of Pinus sylvestris (Scots pine) and Picea abies (Norway spruce) saplings in a static, non\uffe2\uff80\uff90steady\uffe2\uff80\uff90state chamber setup to investigate if the shoots of boreal conifers are a source of CH4 during spring.

We found that the shoots of Scots pine emitted CH4 and these emissions correlated with the photosynthetically active radiation. For Norway spruce, the evidence for CH4 emissions from the shoots was inconclusive.

Our study shows that the canopies of evergreen boreal trees are a potential source of CH4 in the spring and that these emissions are driven by a temperature\uffe2\uff80\uff90by\uffe2\uff80\uff90light interaction effect of solar radiation either directly or indirectly through its effects on tree physiological processes.

Aerenchymatic transport is an important mechanism through which plants affect methane (CH4) emissions from peatlands. Controlling environmental factors and the effects of plant phenology remain, however, uncertain.

We identified factors controlling seasonal CH4 flux rate and investigated transport efficiency (flux rate per unit of rhizospheric porewater CH4 concentration). We measured CH4 fluxes through individual shoots of Carex rostrata, Menyanthes trifoliata, Betula nana and Salix lapponum throughout growing seasons in 2020 and 2021 and Equisetum fluviatile and Comarum palustre in high summer 2021 along with water\uffe2\uff80\uff90table level, peat temperature and porewater CH4 concentration.

CH4 flux rate of C. rostrata was related to plant phenology and peat temperature. Flux rates of M. trifoliata and shrubs B. nana and S. lapponum were insensitive to the investigated environmental variables. In high summer, flux rate and efficiency were highest for C. rostrata (6.86\uffe2\uff80\uff89mg\uffe2\uff80\uff89m\uffe2\uff88\uff922\uffc2\uffa0h\uffe2\uff88\uff921 and 0.36\uffe2\uff80\uff89mg\uffe2\uff80\uff89m\uffe2\uff88\uff922\uffc2\uffa0h\uffe2\uff88\uff921 (\uffce\uffbcmol\uffe2\uff80\uff89l\uffe2\uff88\uff921)\uffe2\uff88\uff921, respectively). Menyanthes trifoliata showed a high flux rate, but limited efficiency. Low flux rates and efficiency were detected for the remaining species.

Knowledge of the species\uffe2\uff80\uff90specific CH4 flux rate and their different responses to plant phenology and environmental factors can significantly improve the estimation of ecosystem\uffe2\uff80\uff90scale CH4 dynamics in boreal peatlands.

Methane (CH4) fluxes at peatland plant surfaces are net results of transport of soil-produced CH4 and within-plant CH4 production and consumption, yet factors and processes controlling these fluxes remain unclear. We aimed to assess the effects of seasonality, environmental variables, and CH4 cycling microbes on CH4 fluxes from characteristic fen species.

Methods

Four species (Carex rostrata, Menyanthes trifoliata, Betula nana, Salix lapponum) were selected, and their CH4 fluxes determined in climate-controlled environments with three mesocosms per growing season per species. Microbial genes for CH4 cycling were analysed to check the potential for within-plant CH4 production and oxidation. Two extra experiments were conducted: removal of C. rostrata leaves to identify how leaves constrain CH4 transport, and a labelling experiment with S. lapponum to distinguish between plant-produced and soil-produced CH4 in the plant flux.

Results

All species showed seasonal variability in CH4 fluxes. Higher porewater CH4 concentration increased fluxes from C. rostrata and M. trifoliata, decreased fluxes from S. lapponum, and did not affect fluxes from B. nana. Air temperature only and negatively affected CH4 flux from C. rostrata. Light level did not impact CH4 fluxes. Both methanogens and methanotrophs were detected in shoots of S. lapponum and M. trifoliata, methanotrophs in B. nana, and neither in C. rostrata.

Conclusion

Our study demonstrates that the seasonal phase of the plants regulates the CH4 fluxes they mediate across species. The detection of methanogens and methanotrophs in herbs and shrubs suggests that microbial processes may contribute to their CH4 fluxes.

", "keywords": ["0301 basic medicine", "570", "0303 health sciences", "metanotrofit", "varvut", "Herbs", "11831 Plant biology", "metaani", "Environmental sciences", "Controlled environments", "Microbes", "03 medical and health sciences", "Phenology", "suot", "Plant-mediated CH fluxes", "suokasvillisuus", "Shrubs", "metanogeenit", "sarat"]}, "links": [{"href": "https://doi.org/10138/577327"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Plant%20and%20Soil", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10138/577327", "name": "item", "description": "10138/577327", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10138/577327"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-06-01T00:00:00Z"}}, {"id": "10449/84375", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:24:59Z", "type": "Journal Article", "created": "2024-02-26", "title": "Class-wide genomic tendency throughout specific extremes in black fungi", "description": "Open AccessThe classes Dothideomycetes and Eurotiomycetes include constitutively melanized fungi adapted to extreme conditions and they are widely distributed in diverse hostile habitats worldwide. Yet, despite the growing interest in these fungi, there is a considerable gap of knowledge on their functionality. Their genomic analysis is still in its infancy and the possibility to understand their adaptive strategies and exploit their potentialities in bioremediation is very limited. Here, we supply a genome catalog of 118 black fungi, encompassing diferent ecologies, phylogenies and lifestyles, as a frst example of a comparative genomic study at high level of diversity. Results indicate that, as a rule, Dothideomycetes show more variable genome size and that larger genomes are associated with harshest conditions; low temperature tolerance and DNA repair capacity are overrepresented in their genomes. In Eurotiomycetes high temperature tolerance and capacity to metabolize hydrocarbons are more frequently present and these abilities are positively correlated with the human presence. The genomic features are consistent with the prevalent ecologies in the two classes. Indeed, Dothideomycetes are more common in cold and dry environments with high capacity for DNA repair being consistent with the normally highly UV-impacted conditions in their habitats; in contrast, Eurotiomycetes spread mainly in hot human-impacted sites with industrial pollution. Mean annual temperature and isothermality are positively correlated with tolerance to high temperatures in Dothideomycetes, suggesting that, despite their preference for the cold, they are potentially equipped to survive even when temperatures rise due to the global warming.", "keywords": ["570", "Black Fungi", "Plant Biology", "Health Disparities (rcdc)", "Mycology & Parasitology", "Biotechnology (rcdc)", "Microbiology", "3105 Genetics (for-2020)", "0607 Plant Biology (for)", "0605 Microbiology (for)", "Genetics", "Black fungi \u00b7 Stress resistance \u00b7 Comparative genomics \u00b7 Extreme environments", "14. Life underwater", "3108 Plant biology (for-2020)", "2. Zero hunger", "Evolutionary Biology", "31 Biological Sciences (for-2020)", "Black fungi", "Genetics (rcdc)", "3107 Microbiology (for-2020)", "Comparative genomics", "Human Genome", "500", "Mycology & Parasitology (science-metrix)", "3104 Evolutionary biology (for-2020)", "Extreme environments", "Biological Sciences", "15. Life on land", "Human Genome (rcdc)", "3. Good health", "Health Disparities", "0603 Evolutionary Biology (for)", "13. Climate action", "8. Economic growth", "Stress resistance", "Settore BIO/19 - MICROBIOLOGIA GENERALE", "Biotechnology"]}, "links": [{"href": "https://iris.unitn.it/bitstream/11572/450837/1/FUDI_Coleine%20et%20al%20v2..pdf"}, {"href": "https://iris.unitn.it/bitstream/11572/450837/3/s13225-024-00533-y.pdf"}, {"href": "https://escholarship.org/content/qt86f967px/qt86f967px.pdf"}, {"href": "https://doi.org/10449/84375"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Fungal%20Diversity", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10449/84375", "name": "item", "description": "10449/84375", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10449/84375"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-02-26T00:00:00Z"}}, {"id": "10754/660313", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-05-29T16:25:04Z", "type": "Journal Article", "created": "2019-10-25", "title": "Genetic Loci Associated with Early Salt Stress Responses of Roots", "description": "Salinity is a devastating abiotic stress accounting for major crop losses yearly. Plant roots can strikingly grow away from high-salt patches. This response is termed halotropism and occurs through auxin redistribution in roots in response to a salt gradient. Here, a natural variation screen for the early and NaCl-specific halotropic response of 333 Arabidopsis accessions revealed quantitative differences in the first 24 h. These data were successfully used to identify genetic components associated with the response through Genome-Wide Association Study (GWAS). Follow-up characterization of knockout mutants in Col-0 background confirmed the role of transcription factor WRKY25, cation-proton exchanger CHX13, and a gene of unknown function DOB1 (Double Bending 1) in halotropism. In chx13 and dob1 mutants, ion accumulation and shoot biomass under salt stress were also affected. Thus, our GWAS has identified genetic components contributing to main root halotropism that provide insight into the genetic architecture underlying plant salt responses.", "keywords": ["580", "0301 basic medicine", "2. Zero hunger", "570", "0303 health sciences", "Science", "Q", "Plant Biology", "Biological Sciences", "15. Life on land", "Plant Genetics", "Article", "03 medical and health sciences", "Plant Physiology"]}, "links": [{"href": "https://doi.org/10754/660313"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/iScience", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10754/660313", "name": "item", "description": "10754/660313", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10754/660313"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-11-01T00:00:00Z"}}, {"id": "10779/rcsi.24421873.v1", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-29T16:25:05Z", "type": "Report", "title": "Root litter decomposition is suppressed in species mixtures and in the presence of living roots", "keywords": ["biotic interactions", "Plant biology", "plant species", "mixed-species litter", "living roots", "rhizosphere priming effect", "Plant biochemistry", "home-field advantage", "root litter decomposition", "interactions between species", "litter mixture", "root exudates", "plant diversity"]}, "links": [{"href": "https://doi.org/10779/rcsi.24421873.v1"}, {"rel": "self", "type": "application/geo+json", "title": "10779/rcsi.24421873.v1", "name": "item", "description": "10779/rcsi.24421873.v1", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10779/rcsi.24421873.v1"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-11-01T00:00:00Z"}}], "links": [{"rel": "self", "type": "application/geo+json", "title": "This document as GeoJSON", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=Plant+biology&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=Plant+biology&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=Plant+biology&", "hreflang": "en-US"}, {"rel": "next", "type": "application/geo+json", "title": "items (next)", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=Plant+biology&offset=50", "hreflang": "en-US"}], "numberMatched": 58, "numberReturned": 50, "distributedFeatures": [], "timeStamp": "2026-05-30T09:11:37.255499Z"}