{"type": "FeatureCollection", "features": [{"id": "10.5281/zenodo.14252610", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:23:30Z", "type": "Dataset", "title": "Data from: Turfgrass pedogenesis under low maintenance: an experimental analysis with Festuca rubra subspecies at different fertilization levels", "description": "unspecifiedThatchMatThickeness.csv (Frc = Festuca rubra commutata, Frt = Festuca rubra trichophylla, Frr = Festuca rubra rubra) spec = subspecies var = variety rep = replicate number Nfert = N fertilization (kg N ha-1) thatch1 = thatch thickness at 18-5-2018 (cm) thatch2 = thatch thickness at 26-10-2018 (cm) thatch3 = thatch thickness at 17-5-2019 (cm) thatch4 =\u00a0 thatch thickness at 29-10-2019 (cm) thatch5 = thatch thickness at 10-6-2020 (cm) thatch6 = thatch tcicknesss at 16-6-2021 (cm) mat1 = mat thickness at 18-5-2018 (cm) mat2 = mat thickness at 26-10-2018 (cm) mat3 = mat thickness at 17-5-2019 (cm) mat4 =\u00a0 mat thickness at 29-10-2019 (cm) mat5 = mat thickness at 10-6-2020 (cm) mat6 = mat tcicknesss at 16-6-2021 (cm)", "keywords": ["Festuca rubra", "festuca rubra", "fertilization", "carbon", "soil layers", "pedogenesis", "turfgrass", "microbes", "Turfgrass", "nitrogen", "Carbon", "organic matter"], "contacts": [{"organization": "Evers, Maurice, De Caluwe, Hannie, Visser, Eric J.W., De Kroon, Hans,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5281/zenodo.14252610"}, {"rel": "self", "type": "application/geo+json", "title": "10.5281/zenodo.14252610", "name": "item", "description": "10.5281/zenodo.14252610", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5281/zenodo.14252610"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-12-01T00:00:00Z"}}, {"id": "10.1890/12-1243.1", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:20:43Z", "type": "Journal Article", "created": "2012-10-29", "title": "Microbial Abundance And Composition Influence Litter Decomposition Response To Environmental Change", "description": "

Rates of ecosystem processes such as decomposition are likely to change as a result of human impacts on the environment. In southern California, climate change and nitrogen (N) deposition in particular may alter biological communities and ecosystem processes. These drivers may affect decomposition directly, through changes in abiotic conditions, and indirectly through changes in plant and decomposer communities. To assess indirect effects on litter decomposition, we reciprocally transplanted microbial communities and plant litter among control and treatment plots (either drought or N addition) in a grassland ecosystem. We hypothesized that drought would reduce decomposition rates through moisture limitation of decomposers and reductions in plant litter quality before and during decomposition. In contrast, we predicted that N deposition would stimulate decomposition by relieving N limitation of decomposers and improving plant litter quality. We also hypothesized that adaptive mechanisms would allow microbes to decompose litter more effectively in their native plot and litter environments. Consistent with our first hypothesis, we found that drought treatment reduced litter mass loss from 20.9% to 15.3% after six months. There was a similar decline in mass loss of litter inoculated with microbes transplanted from the drought treatment, suggesting a legacy effect of drought driven by declines in microbial abundance and possible changes in microbial community composition. Bacterial cell densities were up to 86% lower in drought plots and at least 50% lower on litter derived from the drought treatment, whereas fungal hyphal lengths increased by 13\uffe2\uff80\uff9314% in the drought treatment. Nitrogen effects on decomposition rates and microbial abundances were weaker than drought effects, although N addition significantly altered initial plant litter chemistry and litter chemistry during decomposition. However, we did find support for microbial adaptation to N addition with N\uffe2\uff80\uff90derived microbes facilitating greater mass loss in N plots than in control plots. Our results show that environmental changes can affect rates of ecosystem processes directly through abiotic changes and indirectly through microbial abundances and communities. Therefore models of ecosystem response to global change may need to represent microbial biomass and community composition to make accurate predictions.

", "keywords": ["Time Factors", "Nitrogen", "Precipitation", "Nitrogen fertilization", "Environmental Microbiology", "Community composition", "Animals", "Home field advantage", "Global change", "Ecosystem", "2. Zero hunger", "Drought", "Bacteria", "Litter decomposition", "Fungi", "04 agricultural and veterinary sciences", "15. Life on land", "Grassland", "Reciprocal transplant", "6. Clean water", "Droughts", "Plant Leaves", "Microbes", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "Environmental Monitoring"]}, "links": [{"href": "https://escholarship.org/content/qt5bg595vm/qt5bg595vm.pdf"}, {"href": "https://doi.org/10.1890/12-1243.1"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1890/12-1243.1", "name": "item", "description": "10.1890/12-1243.1", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1890/12-1243.1"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-03-01T00:00:00Z"}}, {"id": "10.1007/s13595-018-0690-1", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:15:49Z", "type": "Journal Article", "created": "2018-01-31", "title": "Thinning Affects Microbial Biomass Without Changing Enzyme Activity In The Soil Of Pinus Densiflora Sieb. Et Zucc. Forests After 7 Years", "description": "AbstractKey messageThinning increased microbial biomass but did not alter enzyme activities in the soil ofPinus densifloraSieb. et Zucc. forests in South Korea. This effect of thinning was larger under a relatively heavy thinning intensity, but there was divergence in the magnitude between sites.ContextThe balance between microbial biomass accumulation and enzymatic C and N assimilation determines the level of bio-available C and N. However, the effects of thinning on these parameters remain contradictory and unconfirmed.AimsThe effects of thinning intensity on microbial biomass and enzyme activity were assessed in the soil of Pinus densiflora Sieb. et Zucc. forests in South Korea.MethodsUn-thinned control and 15 and 30% basal area thinning treatments were applied to two 51- to 60-year-old P. densiflora forests with different management histories, topographies, rainfall amounts, and soils. Seven years after thinning, microbial biomass and activities of N-acetyl-glucosaminidase, \u03b2-glucosidase, cellobiohydrolase, \u03b2-xylosidase, phenol oxidase, and peroxidase were measured before and after seasonally concentrated rains and at 0\u201310\u00a0cm depth.ResultsMicrobial biomass was generally highest under the 30% basal area thinning and lowest under the control, and was positively correlated to total soil C and N. The increase in microbial biomass was lower at the site displaying sandier, drier, and more acidic soils and retaining smaller amounts of thinning residue. Conversely, thinning had no significant effect on activities of all enzymes at both sites in both periods.ConclusionThinning can promote accumulation of microbial biomass without significant change in enzyme activities participating in the assimilation of C and N. This effect of thinning tended to increase with thinning intensity but differed in magnitude between sites.", "keywords": ["[SDV] Life Sciences [q-bio]", "0106 biological sciences", "2. Zero hunger", "Forest management", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "04 agricultural and veterinary sciences", "Soil microbes", "15. Life on land", "Enzyme assay", "01 natural sciences", "Korean red pine"]}, "links": [{"href": "https://doi.org/10.1007/s13595-018-0690-1"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Annals%20of%20Forest%20Science", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s13595-018-0690-1", "name": "item", "description": "10.1007/s13595-018-0690-1", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s13595-018-0690-1"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-01-31T00:00:00Z"}}, {"id": "10.1007/s11104-022-05508-z", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:15:37Z", "type": "Journal Article", "created": "2022-06-22", "title": "Harnessing belowground processes for sustainable intensification of agricultural systems", "description": "Abstract

Increasing food demand coupled with climate change pose a great challenge to agricultural systems. In this review we summarize recent advances in our knowledge of how plants, together with their associated microbiota, shape rhizosphere processes. We address (molecular) mechanisms operating at the plant\uffe2\uff80\uff93microbe-soil interface and aim to link this knowledge with actual and potential avenues for intensifying agricultural systems, while at the same time reducing irrigation water, fertilizer inputs and pesticide use. Combining in-depth knowledge about above and belowground plant traits will not only significantly advance our mechanistic understanding of involved processes but also allow for more informed decisions regarding agricultural practices and plant breeding. Including belowground plant-soil-microbe interactions in our breeding efforts will help to select crops resilient to abiotic and biotic environmental stresses and ultimately enable us to produce sufficient food in a more sustainable agriculture in the upcoming decades.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": "10.1016/j.mec.2020.e00126", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:17:14Z", "type": "Journal Article", "created": "2020-03-19", "title": "Synthetic control of plasmid replication enables target- and self-curing of vectors and expedites genome engineering of Pseudomonas putida", "description": "Genome engineering of non-conventional microorganisms calls for the development of dedicated synthetic biology tools. Pseudomonas putida is a Gram-negative, non-pathogenic soil bacterium widely used for metabolic engineering owing to its versatile metabolism and high levels of tolerance to different types of stress. Genome editing of P. putida largely relies on homologous recombination events, assisted by helper plasmid-based expression of genes encoding DNA modifying enzymes. Plasmid curing from selected isolates is the most tedious and time-consuming step of this procedure, and implementing commonly used methods to this end in P. putida (e.g. temperature-sensitive replicons) is often impractical. To tackle this issue, we have developed a toolbox for both target- and self-curing of plasmid DNA in Pseudomonas species. Our method enables plasmid-curing in a simple cultivation step by combining in vivo digestion of vectors by the I-SceI homing nuclease with synthetic control of plasmid replication, triggered by the addition of a cheap chemical inducer (3-methylbenzoate) to the medium. The system displays an efficiency of vector curing >90% and the screening of plasmid-free clones is greatly facilitated by the use of fluorescent markers that can be selected according to the application intended. Furthermore, quick genome engineering of P. putida using self-curing plasmids is demonstrated through genome reduction of the platform strain EM42 by eliminating all genes encoding \u03b2-lactamases, the catabolic ben gene cluster, and the pyoverdine synthesis machinery. Physiological characterization of the resulting streamlined strain, P. putida SEM10, revealed advantageous features that could be exploited for metabolic engineering.", "keywords": ["Genome engineering", "0301 basic medicine", "0303 health sciences", "Pseudomonas putida", "QH301-705.5", "Plasmid curing", "3. Good health", "03 medical and health sciences", "Special issue on Non-conventional microbes edited by Ian Wheeldon and Aindrila Mukhopadhyay", "Biology (General)", "Metabolic engineering", "Synthetic biology", "TP248.13-248.65", "Biotechnology"]}, "links": [{"href": "https://doi.org/10.1016/j.mec.2020.e00126"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Metabolic%20Engineering%20Communications", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.mec.2020.e00126", "name": "item", "description": "10.1016/j.mec.2020.e00126", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.mec.2020.e00126"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-06-01T00:00:00Z"}}, {"id": "10.1016/j.soilbio.2010.09.017", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:17:34Z", "type": "Journal Article", "created": "2010-09-29", "title": "Fungi Mediate Long Term Sequestration Of Carbon And Nitrogen In Soil Through Their Priming Effect", "description": "It is increasingly recognized that soil microbes have the ability to decompose old recalcitrant soil organic matter (SOM) by using fresh carbon as a source of energy, a phenomena called priming effect (PE). However, efforts to determine the consequences of this PE for soil carbon and nitrogen dynamics are in their early stage. Moreover, little is known about the microbial populations involved. Here we explore the consequences of PE for SOM dynamics and mineral nitrogen availability in a soil incubation experiment (161 days), combining the supply of dual-labeled (13C and 14C) cellulose and mineral nutrients. The microbial groups involved in PE were investigated using molecular fingerprinting techniques (FAMEs and B- and F-ARISA). We show that mean residence time of SOM pool controlled by the PE decreased from 3130 years in the subsoil, where the availability of fresh carbon is very low, to 17\u201339 years in the surface layer. This result suggests that the decomposition of this recalcitrant soil C pool is strictly dependent on the presence of fresh C and is not an energetically viable mean of accessing C for soil microbes. We also suggest that fungi are the predominant actors of cellulose decomposition and induced PE and they adjust their degradation activity to nutrient availability. The predominant role of fungi can be explained by their ability to grow as mycelium which allows them to explore soil space and mine large reserve of SOM. Finally, our results support the existence of a bank mechanism that regulates nutrient and carbon sequestration in soil: PE is low when nutrient availability is high, allowing sequestration of nutrients and carbon; in contrast, microbes release nutrients from SOM when nutrient availability is low. This bank mechanism may help to synchronize the availability of soluble nutrients to plant requirement and contribute to long-term SOM accumulation in ecosystems.", "keywords": ["2. Zero hunger", "570", "550", "FUNGI", "04 agricultural and veterinary sciences", "[SDV.SA.SDS]Life Sciences [q-bio]/Agricultural sciences/Soil study", "15. Life on land", "CELLULOTYC MICROBES", "STOICHIOMETRY", "01 natural sciences", "NITROGEN CYCLING", "CARBON SEQUESTRATION", "PRIMING EFFECT", "13. Climate action", "MICROBIAL ECOLOGY", "SOIL FERTILITY", "0401 agriculture", " forestry", " and fisheries", "EFFET D'AMOR\u00c7AGE", "[SDV.SA.SDS] Life Sciences [q-bio]/Agricultural sciences/Soil study", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1016/j.soilbio.2010.09.017"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Soil%20Biology%20and%20Biochemistry", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.soilbio.2010.09.017", "name": "item", "description": "10.1016/j.soilbio.2010.09.017", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.soilbio.2010.09.017"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2011-01-01T00:00:00Z"}}, {"id": "10.1016/j.soilbio.2021.108357", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:17:40Z", "type": "Journal Article", "created": "2021-07-10", "title": "A critical perspective on interpreting amplicon sequencing data in soil ecological research", "description": "Abstract Microbial community analysis via marker gene amplicon sequencing has become a routine method in the field of soil research. In this perspective, we discuss technical challenges and limitations of amplicon sequencing and present statistical and experimental approaches that can help addressing the spatio-temporal complexity of soil and the high diversity of organisms therein. We illustrate the impact of compositionality on the interpretation of relative abundance data and discuss effects of sample replication on the statistical power in soil community analysis. Additionally, we argue for the need of increased study reproducibility and data availability, as well as complementary techniques for generating deeper ecological insights into microbial roles and our understanding thereof in soil ecosystems. At this stage, we call upon researchers and specialized soil journals to consider the current state of data analysis, interpretation, and availability to improve the rigor of future studies.", "keywords": ["0301 basic medicine", "2. Zero hunger", "Soil microbial diversity", "0303 health sciences", "Soil metabarcoding", "DIVERSITY", "Ecology; Soil microbes; Amplicon sequencing", "Compositional data", "SCALE SPATIAL HETEROGENEITY", "15. Life on land", "BIOMASS", "03 medical and health sciences", "106026 \u00d6kosystemforschung", "Soil complexity", "CARBON-USE EFFICIENCY", "BACTERIA", "DNA EXTRACTION", "MICROORGANISMS", "MICROBIAL COMMUNITIES", "106026 Ecosystem research", "RIBOSOMAL-RNA", "Amplicon sequencing", "Soil microorganisms", "GENERATION"]}, "links": [{"href": "https://doi.org/10.1016/j.soilbio.2021.108357"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Soil%20Biology%20and%20Biochemistry", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.soilbio.2021.108357", "name": "item", "description": "10.1016/j.soilbio.2021.108357", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.soilbio.2021.108357"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-09-01T00:00:00Z"}}, {"id": "10.1038/s41586-023-06999-1", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:18:26Z", "type": "Journal Article", "created": "2024-03-06", "title": "Model uncertainty obscures major driver of soil carbon", "description": "International audience", "keywords": ["0301 basic medicine", "[SDU.OCEAN]Sciences of the Universe [physics]/Ocean", "Atmosphere", "[SDU.OCEAN] Sciences of the Universe [physics]/Ocean", " Atmosphere", "carbon use efficiency", "Uncertainty", "01 natural sciences", "[SDU.ENVI] Sciences of the Universe [physics]/Continental interfaces", " environment", "03 medical and health sciences", "[SDU.ENVI]Sciences of the Universe [physics]/Continental interfaces", "microbes", "environment", "Global soil carbon", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://www.nature.com/articles/s41586-023-06999-1.pdf"}, {"href": "https://escholarship.org/content/qt7vw1d7sf/qt7vw1d7sf.pdf"}, {"href": "https://doi.org/10.1038/s41586-023-06999-1"}, {"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/s41586-023-06999-1", "name": "item", "description": "10.1038/s41586-023-06999-1", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1038/s41586-023-06999-1"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-03-06T00:00:00Z"}}, {"id": "10.1088/1748-9326/ab239c", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:19:01Z", "type": "Journal Article", "created": "2019-05-30", "title": "Global soil acidification impacts on belowground processes", "description": "Abstract

With continuous nitrogen (N) enrichment and sulfur (S) deposition, soil acidification has accelerated and become a global environmental issue. However, a full understanding of the general pattern of ecosystem belowground processes in response to soil acidification due to the impacting factors remains elusive. We conducted a meta-analysis of soil acidification impacts on belowground functions using 304 observations from 49 independent studies, mainly including soil cations, soil nutrient, respiration, root and microbial biomass. Our results show that acid addition significantly reduced soil pH by 0.24 on average, with less pH decrease in forest than non-forest ecosystems. The response ratio of soil pH was positively correlated with site precipitation and temperature, but negatively with initial soil pH. Soil base cations (Ca2+, Mg2+, Na+) decreased while non-base cations (Al3+, Fe3+) increased with soil acidification. Soil respiration, fine root biomass, microbial biomass carbon and nitrogen were significantly reduced by 14.7%, 19.1%, 9.6% and 12.1%, respectively, under acid addition. These indicate that soil carbon processes are sensitive to soil acidification. Overall, our meta-analysis suggests a strong negative impact of soil acidification on belowground functions, with the potential to suppress soil carbon emission. It also arouses our attention to the toxic effects of soil ions on terrestrial ecosystems.

", "keywords": ["Biomass (ecology)", "Organic chemistry", "Soil pH", "soil respiration", "Environmental technology. Sanitary engineering", "Agricultural and Biological Sciences", "Engineering", "Terrestrial ecosystem", "Soil water", "Climate change", "GE1-350", "TD1-1066", "Ecology", "Physics", "Soil Water Retention", "Ocean acidification", "Q", "Life Sciences", "Soil respiration", "04 agricultural and veterinary sciences", "Soil carbon", "6. Clean water", "Chemistry", "Physical Sciences", "Environmental chemistry", "soil cations", "microbes", "Mechanics and Transport in Unsaturated Soils", "Nitrogen", "Science", "QC1-999", "Materials Science", "Soil Science", "Thermal Effects on Soil", "Environmental science", "Biomaterials", "soil pH", "acid deposition", "Soil Carbon Sequestration", "Biology", "Soil acidification", "Ecosystem", "Civil and Structural Engineering", "Applications of Clay Nanotubes in Various Fields", "Soil science", "Soil organic matter", "Soil Fertility", "15. Life on land", "Soil biodiversity", "Agronomy", "meta-analysis", "Environmental sciences", "Soil Hydraulic Properties", "13. Climate action", "FOS: Biological sciences", "Bulk soil", "0401 agriculture", " forestry", " and fisheries", "Soil Carbon Dynamics and Nutrient Cycling in Ecosystems", "Nutrient"]}, "links": [{"href": "https://doi.org/10.1088/1748-9326/ab239c"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Research%20Letters", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1088/1748-9326/ab239c", "name": "item", "description": "10.1088/1748-9326/ab239c", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1088/1748-9326/ab239c"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-07-01T00:00:00Z"}}, {"id": "10.1098/rspb.2023.1345", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:19:10Z", "type": "Journal Article", "created": "2023-11-15", "title": "Cessation of grazing causes biodiversity loss and homogenization of soil food webs", "description": "

There is widespread concern that cessation of grazing in historically grazed ecosystems is causing biotic homogenization and biodiversity loss. We used 12 montane grassland sites along an 800 km north\uffe2\uff80\uff93south gradient across the UK, to test whether cessation of grazing affects local \uffce\uffb1 - and \uffce\uffb2 -diversity of below-ground food webs. We show cessation of grazing leads to strongly decreased \uffce\uffb1 -diversity of most groups of soil microbes and fauna, particularly of relatively rare taxa. By contrast, the \uffce\uffb2 -diversity varied between groups of soil organisms. While most soil microbial communities exhibited increased homogenization after cessation of grazing, we observed decreased homogenization for soil fauna after cessation of grazing. Overall, our results indicate that exclusion of domesticated herbivores from historically grazed montane grasslands has far-ranging negative consequences for diversity of below-ground food webs. This underscores the importance of grazers for maintaining the diversity of below-ground communities, which play a central role in ecosystem functioning.

Plant\uffe2\uff80\uff90associated microbes play essential roles in nutrient uptake and plant productivity, but their role in driving plant germination, a critical stage in the plant life cycle, is still poorly understood.

We used data from a large\uffe2\uff80\uff90scale, field\uffe2\uff80\uff90based soil seed bank study to examine the relationship among plants germinating from the seed bank and soil microbial community composition. We combined this with an experiment using 34 laboratory\uffe2\uff80\uff90based microcosms whereby sterile soil was inoculated with microbes from different field sites to examine how microbes affect the germination of nine plant species.

The community composition of plants in the soil seed bank was highly and significantly associated with bacterial and fungal community composition, with stronger correlations for soil beneath plant canopies. Microbes predicted a unique portion of the variation in the community composition of germinants after accounting for differences in environmental variables. The strongest correlations among microbes and plant functional traits included those related to perenniality, growth form, plant size, root type and seed shape. Our microcosm study showed that different plant species had their own associated germination microbiome, and most plant\uffe2\uff80\uff93microbe interactions were positive during germination.

Synthesis. Our study provides evidence for intimate relationships between plant and soil biodiversity during germination. Our work fills an important knowledge gap for plant\uffe2\uff80\uff93microbe interactions and reveals valuable insights into the shared natural history of plants and microbes in terrestrial ecosystems.

Due to their abilities to survive intense radiation and low water availability, hypersaline microbial mats are often suggested to be analogs of potential extraterrestrial life. However, even on Earth, the limitations imposed on microbial processes by saturation-level salinity have rarely been studied in situ .

Flavonoids are a broad class of secondary metabolites with multifaceted functionalities for plant homeostasis and are involved in facing both biotic and abiotic stresses to sustain plant growth and health. Furthermore, they were discovered as mediators of plant networking with the surrounding environment, showing a surprising ability to perform as signaling compounds for a multitrophic inter-kingdom level of communication that influences the plant host at the phytobiome scale. Flavonoids orchestrate plant-neighboring plant allelopathic interactions, recruit beneficial bacteria and mycorrhizal fungi, counteract pathogen outbreak, influence soil microbiome and affect plant physiology to improve its resilience to fluctuating environmental conditions. This review focuses on the diversified spectrum of flavonoid functions in plants under a variety of stresses in the modulation of plant morphogenesis in response to environmental clues, as well as their role as inter-kingdom signaling molecules with micro- and macroorganisms. Regarding the latter, the review addresses flavonoids as key phytochemicals in the human diet, considering their abundance in fruits and edible plants. Recent evidence highlights their role as nutraceuticals, probiotics and as promising new drugs for the treatment of several pathologies.

", "keywords": ["0301 basic medicine", "phytochemicals; root exudates; phytobiome; plant-microbe interactions; beneficial microbes; plant secondary metabolites; abiotic stress; biotic stress; rhizosphere; microbiome", "0303 health sciences", "03 medical and health sciences", "beneficial microbes", "QH301-705.5", "phytobiome", "plant-microbe interactions", "Review", "Biology (General)", "phytochemicals", "root exudates", "plant secondary metabolites"]}, "links": [{"href": "https://air.unimi.it/bitstream/2434/949072/2/Ghitti%20et%20al%202022%20flavonoids%20are%20intra%20and%20inter%20kingdom%20modulator%20signals.pdf"}, {"href": "https://doi.org/10.3390/microorganisms10122479"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microorganisms", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/microorganisms10122479", "name": "item", "description": "10.3390/microorganisms10122479", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/microorganisms10122479"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-12-15T00:00:00Z"}}, {"id": "10.3389/fmicb.2020.562238", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:21:32Z", "type": "Journal Article", "created": "2020-09-22", "title": "The Free-Living Stage Growth Conditions of the Endophytic Fungus Serendipita indica May Regulate Its Potential as Plant Growth Promoting Microbe", "description": "Serendipita indica (former Piriformospora indica) is a non-obligate endophytic fungus and generally a plant growth and defence promoter with high potential to be used in agriculture. However, S. indica may switch from biotrophy to saprotrophy losing its plant growth promoting traits. Our aim was to understand if the free-living stage growth conditions (namely C availability) regulate S. indica's phenotype, and its potential as plant-growth-promoting-microbe (PGPM). We grew S. indica in its free-living stage under increasing C availabilities (2-20 g L-1 of glucose or sucrose). We first characterised the effect of C availability during free-living stage growth on fungal phenotype: colonies growth and physiology (plasma membrane proton pumps, stable isotopic signatures, and potential extracellular decomposing enzymes). The effect of the C availability during the free-living stage of the PGPM was evaluated on wheat. We observed that C availability during the free-living stage regulated S. indica's growth, ultrastructure and physiology, resulting in two distinct colony phenotypes: compact and explorer. The compact phenotype developed at low C, used peptone as the major C and N source, and displayed higher decomposing potential for C providing substrates; while the explorer phenotype developed at high C, used glucose and sucrose as major C sources and casein and yeast extract as major N sources, and displayed higher decomposing potential for N and P providing substrates. The C availability, or the C/N ratio, during the free-living stage left a legacy to the symbiosis stage, regulating S. indica's potential to promote plant growth: wheat growth promotion by the explorer phenotype was \u00b1 40% higher than that by the compact phenotype. Our study highlights the importance of considering microbial ecology in designing PGPM/biofertilizers. Further studies are needed to test the phenotypes under more extreme conditions, and to understand if the in vitro acquired characteristics persist under field conditions.", "keywords": ["free-living stage", "symbiosis stage", "2. Zero hunger", "0301 basic medicine", "0303 health sciences", "03 medical and health sciences", "fungal phenotype", "morphology", "physiology", "plant-growth-promoting-microbes", "15. Life on land", "Microbiology", "QR1-502"]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2020.562238"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Frontiers%20in%20Microbiology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3389/fmicb.2020.562238", "name": "item", "description": "10.3389/fmicb.2020.562238", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2020.562238"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-09-22T00:00:00Z"}}, {"id": "10.1890/02-0433", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:20:41Z", "type": "Journal Article", "created": "2007-06-04", "title": "Plant Diversity, Soil Microbial Communities, And Ecosystem Function: Are There Any Links?", "description": "A current debate in ecology centers on the extent to which ecosystem function depends on biodiversity. Here, we provide evidence from a long-term field manipulation of plant diversity that soil microbial communities, and the key ecosystem processes that they mediate, are significantly altered by plant species richness. After seven years of plant growth, we determined the composition and function of soil microbial communities beneath experimental plant diversity treatments containing 1-16 species. Microbial community bio- mass, respiration, and fungal abundance significantly increased with greater plant diversity, as did N mineralization rates. However, changes in microbial community biomass, activity, and composition largely resulted from the higher levels of plant production associated with greater diversity, rather than from plant diversity per se. Nonetheless, greater plant pro- duction could not explain more rapid N mineralization, indicating that plant diversity affected this microbial process, which controls rates of ecosystem N cycling. Greater N availability probably contributed to the positive relationship between plant diversity and productivity in the N-limited soils of our experiment, suggesting that plant-microbe in- teractions in soil are an integral component of plant diversity's influence on ecosystem", "keywords": ["2. Zero hunger", "soil C and N cycling", "Science", "Ecology and Evolutionary Biology", "microbial communities", "phospholipid fatty acid analysis", "04 agricultural and veterinary sciences", "15. Life on land", "plant communities", "gross N mineralization", "soil microbes", "ecosystem function", "0401 agriculture", " forestry", " and fisheries", "species richness", "gross N immobilization", "biodiversity"], "contacts": [{"organization": "Zak, Donald R., Holmes, William E., White, David C., Peacock, Aaron D., Tilman, David,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1890/02-0433"}, {"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": "10.1890/02-0433", "name": "item", "description": "10.1890/02-0433", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1890/02-0433"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2003-08-01T00:00:00Z"}}, {"id": "10.1890/03-5133", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:20:41Z", "type": "Journal Article", "created": "2007-06-06", "title": "Relationships Among Fires, Fungi, And Soil Dynamics In Alaskan Boreal Forests", "description": "Fires are critical pathways of carbon loss from boreal forest soils, whereas microbial communities form equally critical controls over carbon accumulation between fires. We used a chronosequence in Alaska to test Read's hypothesis that arbuscular my- corrhizal fungi should dominate ecosystems with low accumulation of surface litter, and ectomycorrhizal fungi should proliferate where organic horizons are well-developed. This pattern is expected because ectomycorrhizal fungi display a greater capacity to mineralize organic compounds than do arbuscular mycorrhizal fungi. The sites were located in upland forests near Delta Junction, Alaska, and represent stages at 3, 15, 45, and 80 years following fire. Soil organic matter accumulated 2.8-fold over time. Fire did not noticeably reduce the abundance of arbuscular mycorrhizal fungi. In contrast, ectomycorrhizal colonization re- quired up to 15 years to return to pre-fire levels. As a result, dominant mycorrhizal groups shifted from arbuscular to ectomycorrhizal fungi as succession progressed. Bacterial func- tional diversity was greatest in the oldest sites. Altogether, microbes that can mineralize organic compounds (i.e., ectomycorrhizae and bacteria) recovered more slowly than those that cannot (i.e., arbuscular mycorrhizae). Potential net N mineralization and standing pools of ammonium-N were relatively low in the youngest site. In addition, glomalin stocks were positively correlated with arbuscular mycorrhizal hyphal length, peaking early in the chron- osequence. Our results indicate that microbial succession may influence soil carbon and nitrogen dynamics in the first several years following fire, by augmenting carbon storage in glomalin while inhibiting mineralization of organic compounds.", "keywords": ["external hyphae", "soil carbon and nitrogen", "biolog", "04 agricultural and veterinary sciences", "15. Life on land", "chronosequence", "fire and soil microbes", "succession", "Alaskan boreal forest", "mycorrhizal fungi", "organic material", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "mineralization", "microbial community", "glomalin"]}, "links": [{"href": "https://escholarship.org/content/qt3wc775gm/qt3wc775gm.pdf"}, {"href": "https://doi.org/10.1890/03-5133"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecological%20Applications", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1890/03-5133", "name": "item", "description": "10.1890/03-5133", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1890/03-5133"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2004-12-01T00:00:00Z"}}, {"id": "10.2139/ssrn.4881510", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:21:12Z", "type": "Journal Article", "created": "2024-12-13", "title": "Bedrock modulates the elevational patterns of soil microbial communities", "description": "Elevational gradients are often used to reveal how soil microorganisms will respond to climate change. However, inconsistent microbial distribution patterns across different elevational transects have raised doubts about their practical applicability. We hypothesized that variations in bedrock, which influence soil physical and chemical properties, would explain these inconsistencies. We therefore investigated soil microbial communities (bacterial and fungal) along two adjacent elevational transects with different bedrocks (granite vs. slate) in a subtropical forest. Our findings reveal that soil microbial communities are shaped by complex interactions between bedrock type and environmental factors along elevational gradients. Bacterial biomass was higher on slate, whereas fungal biomass was higher on granite. On granite, both bacterial and fungal biomass increased with elevation, whereas divergent patterns were observed on slate, likely due to the distinct soil properties or combinations of properties influencing microbial biomass on each bedrock. Bedrock and elevation strongly influenced microbial beta-diversity, with beta-diversity on granite driven primarily by soil total phosphorus and moisture, and on slate by soil organic carbon and pH. In contrast, alpha-diversity was impacted less by bedrock and elevation, but its relationship with environmental factors varied markedly between bedrock types. Overall, our results highlight the critical influence of bedrock in determining soil microbial community structure along elevational gradients and their potential responses to climate change.", "keywords": ["[SDU.OCEAN]Sciences of the Universe [physics]/Ocean", "570", "Slate", "Atmosphere", "[SDU.OCEAN] Sciences of the Universe [physics]/Ocean", " Atmosphere", "Altitude", "Climate", "Science", "Granite", "Q", "Soil microbes", "551", "[SDU.ENVI] Sciences of the Universe [physics]/Continental interfaces", " environment", "Soil", "Parent material", "Altitude Climate Granite Parent material Slate Soil microbes", "[SDU.ENVI]Sciences of the Universe [physics]/Continental interfaces", "microbes", "environment"]}, "links": [{"href": "https://doi.org/10.2139/ssrn.4881510"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Geoderma", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.2139/ssrn.4881510", "name": "item", "description": "10.2139/ssrn.4881510", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.2139/ssrn.4881510"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-01-01T00:00:00Z"}}, {"id": "10.2307/1940889", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:21:17Z", "type": "Journal Article", "created": "2006-05-09", "title": "Effects Of Invasion Of An Aspen Forest (Canada) By Dendrobaena-Octaedra (Lumbricidae) On Plant-Growth", "description": "

Effects of invasion of an aspen forest in the Canadian Rocky Mountains by the earthworm Dendrobaena octaedra (Savigny) on nutrient mineralization, soil microflora, and plant growth were investigated during the growth period of 1992. Experimental chambers with reconstructed forest floor were placed in the field and destructively sampled after 7 and 14 wk. D. octaedra enhanced the shoot biomass of the grass Agropyron trachycaulum (Link) Malte (Poaceae) and increased the shoot\uffe2\uff80\uff94to\uffe2\uff80\uff94root ratio during early plant growth. Microbial biomass, basal respiration and respiratory quotient qCO2 in L/F layer material were reduced by D. octaedra but increased in the H layer. The nutrient (NH4+, NO3\uffe2\uff80\uff94, PO43\uffe2\uff80\uff94) content in soil was also affected by D. octaedra but the effects were small. Effects of the earthworms on soil nutrient content were masked by the great variation in the data and by leaching of nutrients from experimental chambers.

", "keywords": ["roots", "microbes and plants", "soil chemistry", "growth", "populus", "microflora and plants", "Invasion effects on nutrients", "Alberta", "forest soils", "microflora and plants in aspen forest", "Dendrobaena octaedra (Oligochaeta): Element cycles", "Forest and woodland", "nutrients", "biomass production", "Invasion consequences for ecosystem processes in forest soils", "impacts of invasion in aspen forest soils", "mineralization", "Annelids", "effects", "invasion impacts on ecosystem processes", "forests", "2. Zero hunger", "plant morphology", "effects on nutrients", "biomass", "soil fertility", "grasslands", "Habitat colonization", "KananaskisValley", "woodland grasslands", "Dispersal", "04 agricultural and veterinary sciences", "15. Life on land", "invasion", "Invasion of aspen forest soils effects on nutrients", "Invertebrates", "soil biology", "introduced species", "Soil habitat", "Aspen forest soils", "Nutrient mineralization", "0401 agriculture", " forestry", " and fisheries", "dendrobaena", "Impact on habitat", "root shoot ratio", "elymus trachycaulus", "soil fauna", "forest trees", "shoots"], "contacts": [{"organization": "Scheu, Stefan, Parkinson, Dennis,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.2307/1940889"}, {"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": "10.2307/1940889", "name": "item", "description": "10.2307/1940889", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.2307/1940889"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "1994-12-01T00:00:00Z"}}, {"id": "10.3389/fmicb.2016.01893", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:21:31Z", "type": "Journal Article", "created": "2016-11-28", "title": "Long-Term Application Of Bioorganic Fertilizers Improved Soil Biochemical Properties And Microbial Communities Of An Apple Orchard Soil", "description": "Soil biochemical properties and microbial communities are usually considered as important indicators of soil health because of their association with plant nutrition. In this study, we investigated the impact of long-term application of bioorganic fertilizer (BOF) on soil biochemical properties and microbial communities in the apple orchard soil of the Loess Plateau. The experiment included three treatments: (1) control without fertilization (CK); (2) chemical fertilizer application (CF); and (3) bioorganic fertilizer application (BOF). The high throughput sequencing was used to examine the bacterial and fungal communities in apple orchard soil. The results showed that the BOF treatment significantly increased the apple yield during the experimental time (2009-2015). The application of BOF significantly increased the activities of catalase and invertase compared to those in CK and CF treatments. The high throughput sequencing data showed that the application of BOF changed the microbial community composition of all soil depths considered (0-20 cm, 20-40 cm, and 40-60 cm), e.g., the relative abundance of bio-control bacteria (Xanthomonadales, Lysobacter, Pseudomonas, and Bacillus), Proteobacteria, Bacteroidetes, Ohtaekwangia, Ilyonectria, and Lecanicillium was increased while that of Acidobacteria, Chloroflexi, Gp4, Gp6 and Sphaerobacter was decreased. The increase in apple yield after the application of BOF might be due to increase in organic matter, total nitrogen and catalase and invertase activities of soil and change in the bacterial community composition by enriching Bacillus, Pseudomonas, Lysobacter, and Ohtaekwangia. These results further enhance the understanding on how BOFs alter soil microbial community composition to stimulate soil productivity.", "keywords": ["2. Zero hunger", "composition", "soil microbes", "soil depth", "0401 agriculture", " forestry", " and fisheries", "04 agricultural and veterinary sciences", "15. Life on land", "Bioorganic fertilizers", "Apple yield", "Microbiology", "QR1-502", "6. Clean water"]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2016.01893"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Frontiers%20in%20Microbiology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3389/fmicb.2016.01893", "name": "item", "description": "10.3389/fmicb.2016.01893", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2016.01893"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2016-11-28T00:00:00Z"}}, {"id": "10.3390/fermentation8050225", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:21:42Z", "type": "Journal Article", "created": "2022-05-14", "title": "Designing a Waste-Based Culture Medium for the Production of Plant Growth Promoting Microorganisms Based on Cladodes Juice from Opuntia ficus-indica Pruning", "description": "

The production of beneficial microorganisms is the first step to obtain a commercial-based product for application in agriculture. In this study, prickly pear (Opuntia ficus-indica) pruning waste was evaluated as a raw material for the production of large amounts of Plant Growth Promoting Microorganisms (PGPMs) reducing the number of generated wastes. Specifically, five PGPMs constituting a synthetic microbial consortium with complementing plant growth-promoting traits were grown on a laboratory scale and, subsequently, on a pilot scale using a 21-L bioreactor. Primarily, the physical-chemical characterization of the culture medium obtained from the juice of Opuntia cladodes was carried out, revealing the presence of sugars and organic acids with different molar ratios. Compared to conventional media, the waste medium did not show significant differences in bacterial growth efficiency. Instead, the survival rates of the bacteria grown in cladodes juice media, after air-drying on zeolite or freeze-drying, were significantly higher than those observed when they were grown in conventional media. The present work is the first conducted on a pilot-scale that maximizes the production of PGPMs in submerged fermentation using cladodes juice from Opuntia, reducing both economic and environmental impacts associated with the generation of wastes.

", "keywords": ["plant growth promoting microbes;", "biofertilizers", "0301 basic medicine", "TP500-660", "0303 health sciences", "330", "microbial biomass", "Opuntia pruning wastes; cladodes juice; plant growth-promoting microorganisms; biofertilizers; microbial biomass", "Fermentation industries. Beverages. Alcohol", "Opuntia pruning wastes; cladodes juice; plant growth-promoting microorganisms; biofertilizers; microbial biomass", "Opuntia pruning wastes", "6. Clean water", "plant growth promoting microbes", "03 medical and health sciences", "plant growth-promoting microorganisms", "cladodes juice", "Opuntia pruning wastes", "ta414"]}, "links": [{"href": "http://www.mdpi.com/2311-5637/8/5/225/pdf"}, {"href": "https://iris.enea.it/bitstream/20.500.12079/71057/1/Designing%20a%20Waste-Based%20Culture%20Medium%20for%20the%20Production%20of%20Plant%20Growth%20Promoting%20Microorganisms%20Based%20on%20Cladodes%20Juice%20from%20Opuntia%20ficus-indica%20Pruning.pdf"}, {"href": "https://www.mdpi.com/2311-5637/8/5/225/pdf"}, {"href": "https://doi.org/10.3390/fermentation8050225"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Fermentation", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/fermentation8050225", "name": "item", "description": "10.3390/fermentation8050225", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/fermentation8050225"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-05-14T00:00:00Z"}}, {"id": "10.3390/ijms231810376", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:21:44Z", "type": "Journal Article", "created": "2022-09-08", "title": "A Metagenomic and Gene Expression Analysis in Wheat (T. durum) and Maize (Z. mays) Biofertilized with PGPM and Biochar", "description": "

Commodity crops, such as wheat and maize, are extremely dependent on chemical fertilizers, a practice contributing greatly to the increase in the contaminants in soil and water. Promising solutions are biofertilizers, i.e., microbial biostimulants that when supplemented with soil stimulate plant growth and production. Moreover, the biofertilizers can be fortified when (i) provided as multifunctional consortia and (ii) combined with biochar with a high cargo capacity. The aim of this work was to determine the molecular effects on the soil microbiome of different biofertilizers and delivery systems, highlight their physiological effects and merge the data with statistical analyses. The measurements of the physiological parameters (i.e., shoot and root biomass), transcriptomic response of genes involved in essential pathways, and characterization of the rhizosphere population were analyzed. The results demonstrated that wheat and maize supplemented with different combinations of selected microbial consortia and biochar have a positive effect on plant growth in terms of shoot and root biomass; the treatments also had a beneficial influence on the biodiversity of the indigenous rhizo-microbial community, reinforcing the connection between microbes and plants without further spreading contaminants. There was also evidence at the transcriptional level of crosstalk between microbiota and plants.

", "keywords": ["Rhizospheric microbes", "biofertilizer; biochar; Zea mays; Triticum durum; gene expression; rhizospheric microbes; soil pollution", "0301 basic medicine", "2. Zero hunger", "570", "0303 health sciences", "Soil pollution", "Gene Expression", "Water", "Plant Roots", "Zea mays", "630", "Article", "Biochar", "Soil", "03 medical and health sciences", "Triticum durum", "Charcoal", "Biofertilizer", "Gene expression", "Fertilizers", "Biofertilizer; biochar; Zea mays; Triticum durum; gene expression; rhizospheric microbes; soil pollution", "Soil Microbiology", "Triticum"]}, "links": [{"href": "http://www.mdpi.com/1422-0067/23/18/10376/pdf"}, {"href": "https://iris.enea.it/bitstream/20.500.12079/69007/1/A%20Metagenomic%20and%20Gene%20Expression%20Analysis%20in%20Wheat%20%28T.%20durum%29%20and%20Maize%20%28Z.%20mays%29%20Biofertilized%20with%20PGPM%20and%20Biochar.pdf"}, {"href": "https://www.mdpi.com/1422-0067/23/18/10376/pdf"}, {"href": "https://doi.org/10.3390/ijms231810376"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/International%20Journal%20of%20Molecular%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/ijms231810376", "name": "item", "description": "10.3390/ijms231810376", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/ijms231810376"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-09-08T00:00:00Z"}}, {"id": "10.3390/land13111759", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:21:45Z", "type": "Journal Article", "created": "2024-10-28", "title": "Temperate Soils Exposed to Drought\u2014Key Processes, Impacts, Indicators, and Unknowns", "description": "

The summer drought in the United Kingdom (UK) in 2022 produced significant speculation concerning how its termination may impact and interact with the soil resource. Whilst knowledge regarding soils and droughts exists in the scientific literature, a coherent understanding of the wider range of impacts on soil properties and functions has not been compiled for temperate soils. Here, we draw together knowledge from studies in the UK and other temperate countries to understand how soils respond to drought, and importantly what and where our knowledge gaps are. First, we define the different types of droughts and their frequency in the UK and provide a brief overview on the likely societal impacts that droughts place on the soil and related ecosystems. Our focus is on \u2018agricultural and ecosystem drought\u2019, as this is when soils experience dry periods affecting crops and ecosystem function, followed by rewetting. The behaviour of moisture in soils and the key processes that contribute to its storage and transport are examined. The principal changes in the physical, chemical, and biological properties of soils resulting from drought, and rewetting (i.e., drought termination) are discussed and their extensive interactions are demonstrated. Processes that are involved in the rewetting of soils are explored for soil and catchment-scale soil responses. Lastly, soils\u2019 recovery after drought is considered, knowledge gaps are identified, and areas to improve understanding are highlighted.

", "keywords": ["soil health", "rewetting", "soil microbes", "S", "soil water infiltration", "soil water repellency", "drought recovery", "soil nutrients", "Agriculture", "drought termination", "meteorological drought", "soil moisture", "soil fauna"]}, "links": [{"href": "https://www.mdpi.com/2073-445X/13/11/1759/pdf"}, {"href": "https://doi.org/10.3390/land13111759"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Land", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/land13111759", "name": "item", "description": "10.3390/land13111759", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/land13111759"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-10-26T00:00:00Z"}}, {"id": "10.3390/soilsystems3010021", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:21:54Z", "type": "Journal Article", "created": "2019-03-25", "title": "Abiotic and Biotic Factors Influencing the Effect of Microplastic on Soil Aggregation", "description": "

Plastic is an anthropogenic, ubiquitous and persistent contaminant accumulating in our environment. The consequences of the presence of plastics for soils, including soil biota and the processes they drive, are largely unknown. This is particularly true for microplastic. There is only little data available on the effect of microplastics on key soil processes, including soil aggregation. Here, we investigated the consequences of polyester microfiber contamination on soil aggregation of a sandy soil under laboratory conditions. We aimed to test if the microfiber effects on soil aggregation were predominantly physical or biological. We found that soil biota addition (compared to sterile soil) had a significant positive effect on both the formation and stabilization of soil aggregates, as expected, while wet-dry cycles solely affected aggregate formation. Polyester microfiber contamination did not affect the formation and stability of aggregates. But in the presence of soil biota, microfibers reduced soil aggregate stability. Our results show that polyester microfibers have the potential to alter soil structure, and that these effects are at least partially mediated by soil biota.

", "keywords": ["570", "wet-dry cycle", "Physical geography", "04 agricultural and veterinary sciences", "15. Life on land", "01 natural sciences", "GB3-5030", "soil aggregation", "Chemistry", "soil microbes", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "polyester", "microplastic", "QD1-999", "fiber", "0105 earth and related environmental sciences"]}, "links": [{"href": "http://www.mdpi.com/2571-8789/3/1/21/pdf"}, {"href": "https://www.mdpi.com/2571-8789/3/1/21/pdf"}, {"href": "https://doi.org/10.3390/soilsystems3010021"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Soil%20Systems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/soilsystems3010021", "name": "item", "description": "10.3390/soilsystems3010021", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/soilsystems3010021"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-03-22T00:00:00Z"}}, {"id": "10.5061/dryad.9s4mw6mks", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:22:15Z", "type": "Dataset", "title": "Soil microbes respond to four-year warming and precipitation alteration", "description": "unspecifiedSoil temperature and moisture were automatically monitored by 5-TM probe sensors at the soil depth of 5 cm with an EM-to data logger (Meter, Inc., Pullman, WA, USA) in each plot.\u00a0 Soil aerobic respiration (soil CO2 flux) was automatically measured once an hour by the LI-8150 Multiplexer composed of LI -8100-104 long-term chambers (Li-Cor Inc., Lincoln, NE, USA) and a LI-8100 Automated soil CO2 flux system (Wang et al., 2014). As for soil CH4 fluxes, gas samples were collected from all plots twice or three times per month between 9:00 a.m. and 12:00 p.m. on sunny days (Qi et al., 2021). Specifically, a stainless steel collar was inserted 10 cm into the soil in each plot and a static opaque chamber (40 cm in length \u00b4 40 cm in width \u00b4 40 cm in height) was used to collect gas samples from soil at this site (Yuan et al., 2021). At each measurement, 60 mL gas sample was collected in each plot and analyzed within 24 hours using gas chromatography (Agilent 7890A; Agilent Technologies, Santa Clara, CA, USA) to present a one-day average flux. Similar with soil CH4 fluxes, ecosystem C fluxes were also measured twice or three times per month between 9:00 a.m. and 12:00 p.m. on sunny days (Qi et al., 2021). We used a LI-6400 infrared gas analyzer (LI-COR, Inc., Lincoln, NE, USA) with a transparent chamber (0.4 m in length \u00d7 0.4 m in width \u00d7 0.6 m in height) to measure net ecosystem CO2 exchange (NEE). Ecosystem respiration (ER) was measured by using the similar method with the transparent chamber covered by an opaque cloth. Gross ecosystem production (GEP) was estimated as the difference between NEE and ER (Qi et al., 2021). In this study, the more negative NEE represents more CO2 sequestration by terrestrial ecosystem.", "keywords": ["2. Zero hunger", "13. Climate action", "soil microbes", "Global warming", "15. Life on land", "FOS: Natural sciences"], "contacts": [{"organization": "Qi, Qi, Zhao, Jianshu, Tian, Renmao, Zeng, Yufei, Xie, Changyi, Gao, Qun, Dai, Tianjiao, Wang, Hao, He, Jin-Sheng, Konstantinidis, Konstantinos, Yang, Yunfeng, Zhou, Jizhong, Guo, Xue,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5061/dryad.9s4mw6mks"}, {"rel": "self", "type": "application/geo+json", "title": "10.5061/dryad.9s4mw6mks", "name": "item", "description": "10.5061/dryad.9s4mw6mks", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5061/dryad.9s4mw6mks"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-09-25T00:00:00Z"}}, {"id": "10.5061/dryad.g1jwstqx5", "type": "Feature", "geometry": null, "properties": {"license": "unspecified", "updated": "2026-06-23T16:22:17Z", "type": "Dataset", "created": "2023-09-27", "title": "Microbial traits dictate soil neromass accumulation coefficient: A global synthesis", "description": "unspecified# Readme **Title** Microbial necromass carbon accumulation coefficients (NAC) dataset **Author** Bingbing Han, Yanzhong Yao, Yini Wang, Xiaoxuan Su, Lihua Ma, Xinping Chen, Zhaolei Li * **Corresponding author:** Zhaolei Li, Professor E-mail: lizhaolei@swu.edu.cn **Correspondence address:** College of Resources and Environment, and Academy of Agricultural Sciences, Southwest University, Chongqing 400715, China **Data abstract** The accumulation of microbial necromass carbon has drawn mounting attention due to the slow decomposition. However, it remains unclear what determines the microbial necromass carbon accumulation via reiterated community turnover on large spatial scales. This study aimed to explore the characteristics of soil necromass carbon accumulation in terrestrial ecosystems. A dataset was compiled with 993 observations on the coefficient of microbial carbon accumulation in the equilibrium from 82 peer-reviewed papers. The linear mixed-effect models and structural equation models were used to ascertain the controlling factors of NAC on a global scale. The average NAC was higher in croplands (28.2) and forests (26.8) than that in grasslands (21.1). Although the edaphic factors seemingly affect the NAC whereby the NAC lowered in soils with high levels of pH and clay content on a global scale, the biotic factors, particularly for the living microorganism abundance and microbial biomass nitrogen content, were the pivotal drivers of NAC that accounted for approximately 42.5% of the geographic variances in NAC. More organic carbon was likely to be preserved in soil with a higher NAC regardless of ecosystem types. Novel findings on the overriding controls from the living microorganism abundance and microbial biomass nitrogen in driving NAC raise an urgent need for viable strategies in manipulating microbial characteristics for carbon sequestrations. **Data collect** The NACs dataset was compiled from peer-reviewed papers. These peer-reviewed papers were obtained by means of two platforms: the Web of Science ([http://apps.webofkonwledge.com](http://apps.webofkonwledge.com)) and the China National Knowledge Infrastructure Database ([http://www.cnki.net](http://www.cnki.net)). At the same time, the papers were supplemented by Google Scholar. The keywords used to search papers are soil microbial biomass AND microbial necromass AND microbial residue * AND amino sugar * AND PLFAs. The publishing date for the peer-reviewed paper was up to January 20, 2023. The eligible peer-reviewed papers matched the following criteria: (1) Soil microbial necromass was measured using amino sugars as markers; (2) The living microorganisms were determined by phospholipid fatty acid (PLFAs). Finally, the NAC dataset was constructed based on the 82 peer-reviewed papers. The details of the experimental site were also extracted from papers, including the geographic information of the experiment site (i.e., latitude and longitude), climate conditions (i.e., mean annual temperature and mean annual precipitation), and ecosystem types (i.e., grasslands, forests, and croplands). Additionally, soil physicochemical properties [soil pH, the ratio of carbon to nitrogen (soil C: N), total nitrogen (TN), bulk density (BD), clay content, and ammonium content (NH4+)] and the number of replicates were also extracted from the articles. Additionally, in the NAC dataset, the empty cells are representing the data scarcity (i.e., NA values). You should know that not every article will contain all the metrics. **Data analysis** The content of fungal and bacterial necromass carbon was calculated based on the concentrations of amino sugar in microbial cell walls: glucosamine and muramic acid. The bacterial necromass carbon and fungal necromass carbon were calculated using equations (1) and (2). where, MurA is muramic acid and GlcN is glucosamine. In equation (1), 45 is the conversion factor from MurA to bacterial necromass carbon; in equation (2), 9 is the conversion factor from GlcN to fungal necromass carbon; while 179.17 and 251.23 are the molecule weights of GlcN and MurA, respectively. Total microbial necromass carbon was the sum of fungal necromass carbon and bacterial necromass carbon. For the absence of microbial biomass carbon (MBC) in some experimental sites. The NAC functions as the ratio of the microbial necromass carbon to microbial biomass carbon: where MBC is soil microbial biomass carbon. The linear mixed-effect models were used to test the bivariate relationship between the NAC and environmental factor by means of *lme4* packages in R (version 4.2.2., R Core Team). The equation (4) was: where NAC refers to the microbial necromass carbon accumulation coefficient, lnX is the logarithm of each edaphic and climatic factor (except for soil pH and fungi: bacteria ratio), refers to the intercept of this model, refers to the slope value, refers to the random effect of study, refers to the sampling error. **Document Type** We will upload it in data _NAC _2023.csv format to the Dryad database. The main variables collected in the data form were muramic acid (MurA) and glucosamine (GlcN). We perform the calculation of NAC based on equations 1, 2, and 3 above. Total biomass represents the abundance of living microorganisms. Fungal biomass represents the abundance of fungi. Bacterial biomass represents the abundance of bacteria. MBC is microbial biomass nitrogen. SOC is soil organic carbon. **Data processing software** We processed the entire set of data by utilizing the R language, version 4.2.2., R Core Team. **Contact Information** **Corresponding author:** Zhaolei Li, Professor **E-mail:** [lizhaolei@swu.edu.cn](mailto:lizhaolei@swu.edu.cn) **ORCID:** [https://orcid.org/0000-0001-8767-1277](https://orcid.org/0000-0001-8767-1277)", "keywords": ["2. Zero hunger", "microbial abundance", "soil carbon sequestration", "microbial necromass carbon", "living microbes", "FOS: Earth and related environmental sciences", "15. Life on land", "microbial carbon pump", "ecosystem type"], "contacts": [{"organization": "Han, Bingbing, Yao, Yan Zhong, Wang, Yini, Su, Xiaoxuan, Ma, Lihua, Chen, Xinping, Li, Zhaolei,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5061/dryad.g1jwstqx5"}, {"rel": "self", "type": "application/geo+json", "title": "10.5061/dryad.g1jwstqx5", "name": "item", "description": "10.5061/dryad.g1jwstqx5", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5061/dryad.g1jwstqx5"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-10-05T00:00:00Z"}}, {"id": "10.5061/dryad.h781v", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:22:18Z", "type": "Dataset", "title": "Data from: The microbially-mediated soil organic carbon loss under degenerative succession in an alpine meadow", "description": "unspecifiedMicrobial community and network of meadow alpine soil by Illumina sequencingThe Qinghai-Tibet Plateau is the highest and the largest low-latitude plateau in the world, and also it is an extremely sensitive region to the impact of global warming and environmental changes. The alpine meadow, widely distributed on the Tibetan Plateau, occupies over 40% of the Qinghai-Tibetan Plateau area and plays a critical role in regional sustainable development, biodiversity and water resource conservation. The alpine meadow also was a large soil organic-carbon pool.In recently decades, succession and degradation were gradually occurring between different alpine meadow types, such as alpine meadow might appear in the alpine steppe meadow region according to years of field investigation which could be the consequences of the climate warming and anthropogenic activities. The aims of our study were to determine the effect of degenerated succession from alpine meadow (AM) to alpine steppe meadow (ASM) on soil organic carbon and soil microbial community structure.The archived files included one OTU table generated from the 16S rRNA gene sequencing data, as well as the input and output files for the network analyses.Dryad data deposit.7z", "keywords": ["2. Zero hunger", "soil organic carbon", "16S rDNA sequencing", "ecological function", "13. Climate action", "soil microbes", "Microbial community", "15. Life on land", "Land Cover Change", "6. Clean water", "Metagenomic analysis", "12. Responsible consumption"], "contacts": [{"organization": "Zhang, Yuguang, Liu, Xiao, Cong, Jing, Lu, Hui, Sheng, Yuyu, Wang, Xiulei, Li, Diqiang, Liu, Xueduan, Yin, Huaqun, Zhou, Jizhong, Deng, Ye,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5061/dryad.h781v"}, {"rel": "self", "type": "application/geo+json", "title": "10.5061/dryad.h781v", "name": "item", "description": "10.5061/dryad.h781v", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5061/dryad.h781v"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-04-19T00:00:00Z"}}, {"id": "10.5061/dryad.nc57k7g", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:22:19Z", "type": "Dataset", "title": "Data from: Soil microbial biomass increases along elevational gradients in the tropics and sub-tropics but not elsewhere", "description": "Open AccessAppendix S1", "keywords": ["2. Zero hunger", "soil organic carbon", "2002-2018", "13. Climate action", "soil microbes", "Verwerkte data", "Processed data", "15. Life on land", "soil microbial biomass"], "contacts": [{"organization": "He, X., Hou, E., Veen, Ciska, Ellwood, Farnon, Dijkstra, Paul, Sui, X, Zhang, S., Wen, D, Chu, C,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5061/dryad.nc57k7g"}, {"rel": "self", "type": "application/geo+json", "title": "10.5061/dryad.nc57k7g", "name": "item", "description": "10.5061/dryad.nc57k7g", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5061/dryad.nc57k7g"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-09-20T00:00:00Z"}}, {"id": "10.5061/dryad.q428q", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:22:20Z", "type": "Dataset", "title": "Data from: Changes in plant, soil and microbes in a typical steppe from simulated grazing: explaining potential change in soil carbon", "description": "unspecifiedPlant parametersThe data were collected in the field. Excel was used to create the data. SE-standard error, Treatment: C- control,DU-dung and urine return; M-mowing; T-trampling; DU+M-mowing combined with the addition of dung and urine; M+T-mowing combined with trampling; DU+T-trampling combined with the addition of dung and urine; DU+M+T-mowing combined with trampling and the addition of dung and urineSoil parametersThe data were collected in the field. Excel was used to create the data. SE-standard error, MBC-soil microbial biomass carbon, MBN- soil microbial biomass nitrogen. Treatment: C- control,DU-dung and urine return; M-mowing; T-trampling; DU+M-mowing combined with the addition of dung and urine; M+T-mowing combined with trampling; DU+T-trampling combined with the addition of dung and urine; DU+M+T-mowing combined with trampling and the addition of dung and urineSoil microbes' parametersThe data were collected in the field. Excel was used to create the data. SE-standard error, Gram+-gram positive bacteria, Gram--gram negative bacteria, AMF- arbuscular mycorrhizal fungi, B/F-bacteria to fungi ratio. Treatment: C- control,DU-dung and urine return; M-mowing; T-trampling; DU+M-mowing combined with the addition of dung and urine; M+T-mowing combined with trampling; DU+T-trampling combined with the addition of dung and urine; DU+M+T-mowing combined with trampling and the addition of dung and urinePCA and RDA analysis data sheetThe data were collected in the field. Excel was used to create the data. Gram+-gram positive bacteria, Gram--gram negative bacteria, AMF- arbuscular mycorrhizal fungi, B/F-bacteria to fungi ratio, SOC- soil organic carbon, TN- soil total nitrogen, C/N-soil organic carbon to total nitrogen ratio. Treatment: C- control,DU-dung and urine return; M-mowing; T-trampling; DU+M-mowing combined with the addition of dung and urine; M+T-mowing combined with trampling; DU+T-trampling combined with the addition of dung and urine; DU+M+T-mowing combined with trampling and the addition of dung and urine", "keywords": ["2. Zero hunger", "Artemisia frigida", "15. Life on land", "Soil microbes' parameters", "6. Clean water", "13. Climate action", "Cleistogenes squarrosa", "Agropyron cristatum", "PCA and RDA analysis data sheet", "Plant parameters", "Potentilla acaulis", "Soil parameters", "Stipa krylovii", "Leymus chinensis"], "contacts": [{"organization": "Liu, Nan, Kan, Haiming, Yang, Gaowen, Zhang, Yingjun, Yang, G. W.,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5061/dryad.q428q"}, {"rel": "self", "type": "application/geo+json", "title": "10.5061/dryad.q428q", "name": "item", "description": "10.5061/dryad.q428q", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5061/dryad.q428q"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2015-01-20T00:00:00Z"}}, {"id": "20.500.12079/71057", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:26:31Z", "type": "Journal Article", "created": "2022-05-14", "title": "Designing a Waste-Based Culture Medium for the Production of Plant Growth Promoting Microorganisms Based on Cladodes Juice from Opuntia ficus-indica Pruning", "description": "

The production of beneficial microorganisms is the first step to obtain a commercial-based product for application in agriculture. In this study, prickly pear (Opuntia ficus-indica) pruning waste was evaluated as a raw material for the production of large amounts of Plant Growth Promoting Microorganisms (PGPMs) reducing the number of generated wastes. Specifically, five PGPMs constituting a synthetic microbial consortium with complementing plant growth-promoting traits were grown on a laboratory scale and, subsequently, on a pilot scale using a 21-L bioreactor. Primarily, the physical-chemical characterization of the culture medium obtained from the juice of Opuntia cladodes was carried out, revealing the presence of sugars and organic acids with different molar ratios. Compared to conventional media, the waste medium did not show significant differences in bacterial growth efficiency. Instead, the survival rates of the bacteria grown in cladodes juice media, after air-drying on zeolite or freeze-drying, were significantly higher than those observed when they were grown in conventional media. The present work is the first conducted on a pilot-scale that maximizes the production of PGPMs in submerged fermentation using cladodes juice from Opuntia, reducing both economic and environmental impacts associated with the generation of wastes.

", "keywords": ["plant growth promoting microbes;", "biofertilizers", "0301 basic medicine", "TP500-660", "0303 health sciences", "330", "microbial biomass", "Opuntia pruning wastes; cladodes juice; plant growth-promoting microorganisms; biofertilizers; microbial biomass", "Fermentation industries. Beverages. Alcohol", "Opuntia pruning wastes", "6. Clean water", "plant growth promoting microbes", "03 medical and health sciences", "plant growth-promoting microorganisms", "cladodes juice", "Opuntia pruning wastes", "ta414"]}, "links": [{"href": "http://www.mdpi.com/2311-5637/8/5/225/pdf"}, {"href": "https://iris.enea.it/bitstream/20.500.12079/71057/1/Designing%20a%20Waste-Based%20Culture%20Medium%20for%20the%20Production%20of%20Plant%20Growth%20Promoting%20Microorganisms%20Based%20on%20Cladodes%20Juice%20from%20Opuntia%20ficus-indica%20Pruning.pdf"}, {"href": "https://www.mdpi.com/2311-5637/8/5/225/pdf"}, {"href": "https://doi.org/20.500.12079/71057"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Fermentation", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "20.500.12079/71057", "name": "item", "description": "20.500.12079/71057", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/20.500.12079/71057"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-05-14T00:00:00Z"}}, {"id": "10.5281/zenodo.7777923", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:24:39Z", "type": "Dataset", "title": "ReCon Soil Project: Dataset for Identification of Soil Health Indicators in Construction", "description": "Open AccessThe ReCon Soil project has a total budget of \u20ac3.2 million, of which \u20ac2.2 million is funded by the European Regional Development Fund via the Interreg France (Channel) England (FCE) Programme", "keywords": ["2. Zero hunger", "Microbes", "Soil Health", "Soil regeneration", "Plant diversity", "Restoration", "Fungi", "Below ground diversity", "15. Life on land", "6. Clean water", "Construction"], "contacts": [{"organization": "Duley, Emma, Stanton, Katy Jo, Kiernan, Michele, Jones, Joseph, Thompson, Rachel, Pettitt, Tim, Nason, Mark, Wagstaffe, Alexandra, Sharp, Chris,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5281/zenodo.7777923"}, {"rel": "self", "type": "application/geo+json", "title": "10.5281/zenodo.7777923", "name": "item", "description": "10.5281/zenodo.7777923", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5281/zenodo.7777923"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-03-28T00:00:00Z"}}, {"id": "10138/577327", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:25:35Z", "type": "Journal Article", "created": "2024-06-01", "title": "CH4 transport in wetland plants under controlled environmental conditions \u2013 separating the impacts of phenology from environmental variables", "description": "Abstract Background and Aims

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": "10261/336659", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:25:41Z", "type": "Journal Article", "created": "2017-06-12", "title": "Aridity Decouples C:N:P Stoichiometry Across Multiple Trophic Levels in Terrestrial Ecosystems", "description": "Open AccessPeer reviewed", "keywords": ["0301 basic medicine", "2. Zero hunger", "0303 health sciences", "Nitrogen", "Ants", "carbon", "Phosphorus", "ants", "Soil microbes", "15. Life on land", "nitrogen", "Carbon", "Heterotrophs", "03 medical and health sciences", "Autotrophs", "13. Climate action", "XXXXXX - Unknown", "phosphorus"]}, "links": [{"href": "http://link.springer.com/content/pdf/10.1007/s10021-017-0161-9.pdf"}, {"href": "https://doi.org/10261/336659"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecosystems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10261/336659", "name": "item", "description": "10261/336659", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10261/336659"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-06-12T00:00:00Z"}}, {"id": "10451/49641", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:25:48Z", "type": "Journal Article", "created": "2020-09-22", "title": "The Free-Living Stage Growth Conditions of the Endophytic Fungus Serendipita indica May Regulate Its Potential as Plant Growth Promoting Microbe", "description": "Serendipita indica (former Piriformospora indica) is a non-obligate endophytic fungus and generally a plant growth and defence promoter with high potential to be used in agriculture. However, S. indica may switch from biotrophy to saprotrophy losing its plant growth promoting traits. Our aim was to understand if the free-living stage growth conditions (namely C availability) regulate S. indica's phenotype, and its potential as plant-growth-promoting-microbe (PGPM). We grew S. indica in its free-living stage under increasing C availabilities (2-20 g L-1 of glucose or sucrose). We first characterised the effect of C availability during free-living stage growth on fungal phenotype: colonies growth and physiology (plasma membrane proton pumps, stable isotopic signatures, and potential extracellular decomposing enzymes). The effect of the C availability during the free-living stage of the PGPM was evaluated on wheat. We observed that C availability during the free-living stage regulated S. indica's growth, ultrastructure and physiology, resulting in two distinct colony phenotypes: compact and explorer. The compact phenotype developed at low C, used peptone as the major C and N source, and displayed higher decomposing potential for C providing substrates; while the explorer phenotype developed at high C, used glucose and sucrose as major C sources and casein and yeast extract as major N sources, and displayed higher decomposing potential for N and P providing substrates. The C availability, or the C/N ratio, during the free-living stage left a legacy to the symbiosis stage, regulating S. indica's potential to promote plant growth: wheat growth promotion by the explorer phenotype was \u00b1 40% higher than that by the compact phenotype. Our study highlights the importance of considering microbial ecology in designing PGPM/biofertilizers. Further studies are needed to test the phenotypes under more extreme conditions, and to understand if the in vitro acquired characteristics persist under field conditions.", "keywords": ["free-living stage", "symbiosis stage", "2. Zero hunger", "0301 basic medicine", "0303 health sciences", "03 medical and health sciences", "fungal phenotype", "morphology", "physiology", "plant-growth-promoting-microbes", "15. Life on land", "Microbiology", "QR1-502"]}, "links": [{"href": "https://repositorio.ulisboa.pt/bitstream/10451/49641/1/Dias%20et%20al%202020%20-The%20Free-Living%20Stage%20Growth%20Conditions%20of%20the%20Endophytic%20Fungus%20Serendipita%20indica.pdf"}, {"href": "https://doi.org/10451/49641"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Frontiers%20in%20Microbiology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10451/49641", "name": "item", "description": "10451/49641", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10451/49641"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-09-22T00:00:00Z"}}, {"id": "11381/2929372", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:26:00Z", "type": "Journal Article", "created": "2022-09-08", "title": "A Metagenomic and Gene Expression Analysis in Wheat (T. durum) and Maize (Z. mays) Biofertilized with PGPM and Biochar", "description": "

Commodity crops, such as wheat and maize, are extremely dependent on chemical fertilizers, a practice contributing greatly to the increase in the contaminants in soil and water. Promising solutions are biofertilizers, i.e., microbial biostimulants that when supplemented with soil stimulate plant growth and production. Moreover, the biofertilizers can be fortified when (i) provided as multifunctional consortia and (ii) combined with biochar with a high cargo capacity. The aim of this work was to determine the molecular effects on the soil microbiome of different biofertilizers and delivery systems, highlight their physiological effects and merge the data with statistical analyses. The measurements of the physiological parameters (i.e., shoot and root biomass), transcriptomic response of genes involved in essential pathways, and characterization of the rhizosphere population were analyzed. The results demonstrated that wheat and maize supplemented with different combinations of selected microbial consortia and biochar have a positive effect on plant growth in terms of shoot and root biomass; the treatments also had a beneficial influence on the biodiversity of the indigenous rhizo-microbial community, reinforcing the connection between microbes and plants without further spreading contaminants. There was also evidence at the transcriptional level of crosstalk between microbiota and plants.

", "keywords": ["Rhizospheric microbes", "biofertilizer; biochar; Zea mays; Triticum durum; gene expression; rhizospheric microbes; soil pollution", "2. Zero hunger", "0301 basic medicine", "570", "0303 health sciences", "Soil pollution", "Gene Expression", "Water", "Plant Roots", "Zea mays", "630", "Article", "Biochar", "Soil", "03 medical and health sciences", "Triticum durum", "Charcoal", "Biofertilizer", "Gene expression", "Fertilizers", "Soil Microbiology", "Triticum"]}, "links": [{"href": "http://www.mdpi.com/1422-0067/23/18/10376/pdf"}, {"href": "https://iris.enea.it/bitstream/20.500.12079/69007/1/A%20Metagenomic%20and%20Gene%20Expression%20Analysis%20in%20Wheat%20%28T.%20durum%29%20and%20Maize%20%28Z.%20mays%29%20Biofertilized%20with%20PGPM%20and%20Biochar.pdf"}, {"href": "https://www.mdpi.com/1422-0067/23/18/10376/pdf"}, {"href": "https://doi.org/11381/2929372"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/International%20Journal%20of%20Molecular%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "11381/2929372", "name": "item", "description": "11381/2929372", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/11381/2929372"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-09-08T00:00:00Z"}}, {"id": "11381/2969532", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:26:00Z", "type": "Journal Article", "created": "2024-01-19", "title": "Microbial consortia and biochar as sustainable biofertilisers: Analysis of their impact on wheat growth and production", "description": "The European Union is among the top wheat producers in the world, but its productivity relies on adequate soil fertilisation. Biofertilisers, either alone or in combination with biochar, can be a preferable alternative to chemical fertilisers. However, the addition of biofertilisers, specifically plant growth promoting microbes (PGPM), could modify grain composition, and/or deteriorate the soil composition. In this study, the two wheat cultivars Triticum aestivum (Bramante) and T. durum (Svevo) were cultivated in open fields for two consecutive years in the presence of a commercial PGPM mix supplied alone or in combination with biochar. An in-depth analysis was conducted by collecting physiological and agronomic data throughout the growth period. The effects of PGPM and biochar were investigated in detail; specifically, soil chemistry and rhizosphere microbial composition were characterized, along with the treatment effects on seed storage proteins. The results demonstrated that the addition of commercial microbial consortia and biochar, alone or in combination, did not modify the rhizospheric microbial community; however, it increased grain yield, especially in the cultivar Svevo (increase of 6.8\u00a0%-13.6\u00a0%), even though the factors driving the most variations were associated with both climate and cultivar. The total gluten content of the flours was not affected, whereas the main effect of the treatments was a variation in gliadins and low-molecular-weight-glutenin subunits in both cultivars when treated with PGPM and biochar. This suggested improved grain quality, especially regarding the viscoelastic properties of the dough, when the filling period occurred in a dry climate. The results indicate that the application of biofertilisers and biochar may aid the effective management of sustainable wheat cultivation, to support environmental health without altering the biodiversity of the resident microbiome.", "keywords": ["Soil", "Charcoal", "Microbial Consortia", "Edible Grain", "Biochar Gluten Plant growth promoting microbes Sustainable agriculture Wheat", "630", "Triticum"]}, "links": [{"href": "https://doi.org/11381/2969532"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Science%20of%20The%20Total%20Environment", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "11381/2969532", "name": "item", "description": "11381/2969532", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/11381/2969532"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-03-01T00:00:00Z"}}, {"id": "11585/996222", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:26:04Z", "type": "Journal Article", "created": "2021-07-10", "title": "A critical perspective on interpreting amplicon sequencing data in soil ecological research", "description": "Abstract Microbial community analysis via marker gene amplicon sequencing has become a routine method in the field of soil research. In this perspective, we discuss technical challenges and limitations of amplicon sequencing and present statistical and experimental approaches that can help addressing the spatio-temporal complexity of soil and the high diversity of organisms therein. We illustrate the impact of compositionality on the interpretation of relative abundance data and discuss effects of sample replication on the statistical power in soil community analysis. Additionally, we argue for the need of increased study reproducibility and data availability, as well as complementary techniques for generating deeper ecological insights into microbial roles and our understanding thereof in soil ecosystems. At this stage, we call upon researchers and specialized soil journals to consider the current state of data analysis, interpretation, and availability to improve the rigor of future studies.", "keywords": ["0301 basic medicine", "2. Zero hunger", "Soil microbial diversity", "0303 health sciences", "Soil metabarcoding", "DIVERSITY", "Ecology; Soil microbes; Amplicon sequencing", "Compositional data", "SCALE SPATIAL HETEROGENEITY", "15. Life on land", "BIOMASS", "03 medical and health sciences", "106026 \u00d6kosystemforschung", "Soil complexity", "CARBON-USE EFFICIENCY", "BACTERIA", "DNA EXTRACTION", "MICROORGANISMS", "MICROBIAL COMMUNITIES", "106026 Ecosystem research", "RIBOSOMAL-RNA", "Amplicon sequencing", "Soil microorganisms", "GENERATION"]}, "links": [{"href": "https://doi.org/11585/996222"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Soil%20Biology%20and%20Biochemistry", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "11585/996222", "name": "item", "description": "11585/996222", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/11585/996222"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-09-01T00:00:00Z"}}, {"id": "1887/3716986", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:26:16Z", "type": "Journal Article", "created": "2023-11-15", "title": "Cessation of grazing causes biodiversity loss and homogenization of soil food webs", "description": "

There is widespread concern that cessation of grazing in historically grazed ecosystems is causing biotic homogenization and biodiversity loss. We used 12 montane grassland sites along an 800 km north\uffe2\uff80\uff93south gradient across the UK, to test whether cessation of grazing affects local \uffce\uffb1 - and \uffce\uffb2 -diversity of below-ground food webs. We show cessation of grazing leads to strongly decreased \uffce\uffb1 -diversity of most groups of soil microbes and fauna, particularly of relatively rare taxa. By contrast, the \uffce\uffb2 -diversity varied between groups of soil organisms. While most soil microbial communities exhibited increased homogenization after cessation of grazing, we observed decreased homogenization for soil fauna after cessation of grazing. Overall, our results indicate that exclusion of domesticated herbivores from historically grazed montane grasslands has far-ranging negative consequences for diversity of below-ground food webs. This underscores the importance of grazers for maintaining the diversity of below-ground communities, which play a central role in ecosystem functioning.

Plant\uffe2\uff80\uff90associated microbes play essential roles in nutrient uptake and plant productivity, but their role in driving plant germination, a critical stage in the plant life cycle, is still poorly understood.

We used data from a large\uffe2\uff80\uff90scale, field\uffe2\uff80\uff90based soil seed bank study to examine the relationship among plants germinating from the seed bank and soil microbial community composition. We combined this with an experiment using 34 laboratory\uffe2\uff80\uff90based microcosms whereby sterile soil was inoculated with microbes from different field sites to examine how microbes affect the germination of nine plant species.

The community composition of plants in the soil seed bank was highly and significantly associated with bacterial and fungal community composition, with stronger correlations for soil beneath plant canopies. Microbes predicted a unique portion of the variation in the community composition of germinants after accounting for differences in environmental variables. The strongest correlations among microbes and plant functional traits included those related to perenniality, growth form, plant size, root type and seed shape. Our microcosm study showed that different plant species had their own associated germination microbiome, and most plant\uffe2\uff80\uff93microbe interactions were positive during germination.

Synthesis . Our study provides evidence for intimate relationships between plant and soil biodiversity during germination. Our work fills an important knowledge gap for plant\uffe2\uff80\uff93microbe interactions and reveals valuable insights into the shared natural history of plants and microbes in terrestrial ecosystems.

Due to their abilities to survive intense radiation and low water availability, hypersaline microbial mats are often suggested to be analogs of potential extraterrestrial life. However, even on Earth, the limitations imposed on microbial processes by saturation-level salinity have rarely been studied in situ .

Flavonoids are a broad class of secondary metabolites with multifaceted functionalities for plant homeostasis and are involved in facing both biotic and abiotic stresses to sustain plant growth and health. Furthermore, they were discovered as mediators of plant networking with the surrounding environment, showing a surprising ability to perform as signaling compounds for a multitrophic inter-kingdom level of communication that influences the plant host at the phytobiome scale. Flavonoids orchestrate plant-neighboring plant allelopathic interactions, recruit beneficial bacteria and mycorrhizal fungi, counteract pathogen outbreak, influence soil microbiome and affect plant physiology to improve its resilience to fluctuating environmental conditions. This review focuses on the diversified spectrum of flavonoid functions in plants under a variety of stresses in the modulation of plant morphogenesis in response to environmental clues, as well as their role as inter-kingdom signaling molecules with micro- and macroorganisms. Regarding the latter, the review addresses flavonoids as key phytochemicals in the human diet, considering their abundance in fruits and edible plants. Recent evidence highlights their role as nutraceuticals, probiotics and as promising new drugs for the treatment of several pathologies.

", "keywords": ["0301 basic medicine", "phytochemicals; root exudates; phytobiome; plant-microbe interactions; beneficial microbes; plant secondary metabolites; abiotic stress; biotic stress; rhizosphere; microbiome", "0303 health sciences", "03 medical and health sciences", "beneficial microbes", "QH301-705.5", "phytobiome", "plant-microbe interactions", "Review", "Biology (General)", "phytochemicals", "root exudates", "plant secondary metabolites"]}, "links": [{"href": "https://air.unimi.it/bitstream/2434/949072/2/Ghitti%20et%20al%202022%20flavonoids%20are%20intra%20and%20inter%20kingdom%20modulator%20signals.pdf"}, {"href": "https://doi.org/2434/949072"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microorganisms", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "2434/949072", "name": "item", "description": "2434/949072", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/2434/949072"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-12-15T00:00:00Z"}}, {"id": "2624996471", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:26:52Z", "type": "Journal Article", "created": "2017-06-12", "title": "Aridity Decouples C:N:P Stoichiometry Across Multiple Trophic Levels in Terrestrial Ecosystems", "description": "Open AccessPeer reviewed", "keywords": ["2. Zero hunger", "0301 basic medicine", "0303 health sciences", "Nitrogen", "Ants", "carbon", "Phosphorus", "ants", "Soil microbes", "15. Life on land", "nitrogen", "Carbon", " Nitrogen", " Phosphorus", " Heterotrophs", " Autotrophs", " Soil Microbes", " Ants", "Carbon", "Heterotrophs", "03 medical and health sciences", "Autotrophs", "13. Climate action", "XXXXXX - Unknown", "phosphorus"]}, "links": [{"href": "http://link.springer.com/content/pdf/10.1007/s10021-017-0161-9.pdf"}, {"href": "https://doi.org/2624996471"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecosystems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "2624996471", "name": "item", "description": "2624996471", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/2624996471"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-06-12T00:00:00Z"}}, {"id": "38448702", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:27:38Z", "type": "Journal Article", "created": "2024-03-06", "title": "Model uncertainty obscures major driver of soil carbon", "description": "International audience", "keywords": ["0301 basic medicine", "[SDU.OCEAN]Sciences of the Universe [physics]/Ocean", "Atmosphere", "[SDU.OCEAN] Sciences of the Universe [physics]/Ocean", " Atmosphere", "carbon use efficiency", "Uncertainty", "01 natural sciences", "[SDU.ENVI] Sciences of the Universe [physics]/Continental interfaces", " environment", "03 medical and health sciences", "[SDU.ENVI]Sciences of the Universe [physics]/Continental interfaces", "microbes", "environment", "Global soil carbon", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://www.nature.com/articles/s41586-023-06999-1.pdf"}, {"href": "https://escholarship.org/content/qt7vw1d7sf/qt7vw1d7sf.pdf"}, {"href": "https://doi.org/38448702"}, {"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": "38448702", "name": "item", "description": "38448702", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/38448702"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-03-06T00:00:00Z"}}, {"id": "PMC9579094", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:29:52Z", "type": "Journal Article", "created": "2022-06-22", "title": "Harnessing belowground processes for sustainable intensification of agricultural systems", "description": "Abstract

Increasing food demand coupled with climate change pose a great challenge to agricultural systems. In this review we summarize recent advances in our knowledge of how plants, together with their associated microbiota, shape rhizosphere processes. We address (molecular) mechanisms operating at the plant\uffe2\uff80\uff93microbe-soil interface and aim to link this knowledge with actual and potential avenues for intensifying agricultural systems, while at the same time reducing irrigation water, fertilizer inputs and pesticide use. Combining in-depth knowledge about above and belowground plant traits will not only significantly advance our mechanistic understanding of involved processes but also allow for more informed decisions regarding agricultural practices and plant breeding. Including belowground plant-soil-microbe interactions in our breeding efforts will help to select crops resilient to abiotic and biotic environmental stresses and ultimately enable us to produce sufficient food in a more sustainable agriculture in the upcoming decades.