{"type": "FeatureCollection", "features": [{"id": "10.3389/fmicb.2016.01446", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:18:57Z", "type": "Journal Article", "created": "2016-09-14", "description": "Soil management is fundamental to all agricultural systems and fertilization practices have contributed substantially to the impressive increases in food production. Despite the pivotal role of soil microorganisms in agro-ecosystems, we still have a limited understanding of the complex response of the soil microbiota to organic and mineral fertilization in the very long-term. Here, we report the effects of different fertilization regimes (mineral, organic and combined mineral and organic fertilization), carried out for more than a century, on the structure and activity of the soil microbiome. Organic matter content, nutrient concentrations, and microbial biomass carbon were significantly increased by mineral, and even more strongly by organic fertilization. Pyrosequencing revealed significant differences between the structures of bacterial and fungal soil communities associated to each fertilization regime. Organic fertilization increased bacterial diversity, and stimulated microbial groups (Firmicutes, Proteobacteria, and Zygomycota) that are known to prefer nutrient-rich environments, and that are involved in the degradation of complex organic compounds. In contrast, soils not receiving manure harbored distinct microbial communities enriched in oligotrophic organisms adapted to nutrient-limited environments, as Acidobacteria. The fertilization regime also affected the relative abundances of plant beneficial and detrimental microbial taxa, which may influence productivity and stability of the agroecosystem. As expected, the activity of microbial exoenzymes involved in carbon, nitrogen, and phosphorous mineralization were enhanced by both types of fertilization. However, in contrast to comparable studies, the highest chitinase and phosphatase activities were observed in the solely mineral fertilized soil. Interestingly, these two enzymes showed also a particular high biomass-specific activities and a strong negative relation with soil pH. As many soil parameters are known to change slowly, the particularity of unchanged fertilization treatments since 1902 allows a profound assessment of linkages between management and abiotic as well as biotic soil parameters. Our study revealed that pH and TOC were the majors, while nitrogen and phosphorous pools were minors, drivers for structure and activity of the soil microbial community. Due to the long-term treatments studied, our findings likely represent permanent and stable, rather than transient, responses of soil microbial communities to fertilization.", "keywords": ["Soil nutrients", "0301 basic medicine", "2. Zero hunger", "0303 health sciences", "long-term fertilization", "microbial biomass", "15. Life on land", "microbial activity", "Microbiology", "QR1-502", "03 medical and health sciences", "13. Climate action", "soil microbial communities", "soil nutrients", "454 pyrosequencing"]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2016.01446"}, {"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.2016.01446", "name": "item", "description": "10.3389/fmicb.2016.01446", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2016.01446"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2016-09-14T00:00:00Z"}}, {"id": "10.1111/gcb.12418", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:17:29Z", "type": "Journal Article", "created": "2013-10-12", "title": "Soil Microbial And Nutrient Responses To 7years Of Seasonally Altered Precipitation In A Chihuahuan Desert Grassland", "description": "Abstract<p>Soil microbial communities in Chihuahuan Desert grasslands generally experience highly variable spatiotemporal rainfall patterns. Changes in precipitation regimes can affect belowground ecosystem processes such as decomposition and nutrient cycling by altering soil microbial community structure and function. The objective of this study was to determine if increased seasonal precipitation frequency and magnitude over a 7\uffe2\uff80\uff90year period would generate a persistent shift in microbial community characteristics and soil nutrient availability. We supplemented natural rainfall with large events (one/winter and three/summer) to simulate increased precipitation based on climate model predictions for this region. We observed a 2\uffe2\uff80\uff90year delay in microbial responses to supplemental precipitation treatments. In years 3\uffe2\uff80\uff935, higher microbial biomass, arbuscular mycorrhizae abundance, and soil enzyme C and P acquisition activities were observed in the supplemental water plots even during extended drought periods. In years 5\uffe2\uff80\uff937, available soil P was consistently lower in the watered plots compared to control plots. Shifts in soil P corresponded to higher fungal abundances, microbial C utilization activity, and soilpH. This study demonstrated that 25% shifts in seasonal rainfall can significantly influence soil microbial and nutrient properties, which in turn may have long\uffe2\uff80\uff90term effects on nutrient cycling and plant P uptake in this desert grassland.</p>", "keywords": ["precipitation manipulation", "Climate Change", "Rain", "extreme climate events", "Soil", "XXXXXX - Unknown", "Big Bend National Park", "Soil Microbiology", "2. Zero hunger", "Ecology", "Bacteria", "Microbiota", "Fungi", "04 agricultural and veterinary sciences", "Biological Sciences", "15. Life on land", "Grassland", "Texas", "6. Clean water", "desert ecosystems", "13. Climate action", "soil microbial communities", "0401 agriculture", " forestry", " and fisheries", "Seasons", "Desert Climate", "Environmental Sciences"]}, "links": [{"href": "https://escholarship.org/content/qt4v79d7f4/qt4v79d7f4.pdf"}, {"href": "https://doi.org/10.1111/gcb.12418"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Global%20Change%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/gcb.12418", "name": "item", "description": "10.1111/gcb.12418", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/gcb.12418"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2014-04-04T00:00:00Z"}}, {"id": "10.1186/s40793-025-00667-9", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:17:58Z", "type": "Journal Article", "created": "2025-01-18", "title": "Bioinoculant-induced plant resistance is modulated by interactions with resident soil microbes", "description": "BACKGROUND: Entomopathogenic fungi are increasingly used as bio-inoculants to enhance crop growth and resistance. When applied to rhizosphere soil, they interact with resident soil microbes, which can affect their ability to colonize and induce resistance in plants as well as modify the structure of the resident soil microbiome, either directly through interactions in the rhizosphere or indirectly, mediated by the plant. The extent to which such direct versus indirect interactions between bio-inoculants and soil microbes impact microbe-induced resistance in crops remains unclear. This study uses a split-root system to examine the effects of direct versus indirect (plant-mediated) interactions between an entomopathogenic fungus, Metarhizium brunneum, and resident soil microbes on induced resistance in tomato against two-spotted spider mites. Additionally, the study explores how these interactions influence the composition and diversity of soil fungal and bacterial communities. RESULTS: Resident soil microbes reduced the efficacy of M. brunneum to induce resistance against spider mites. This reduction occurred not only when resident microbes directly interacted with the bio-inoculant but also when they were spatially separated within the root system, indicating plant-mediated effects. M. brunneum inoculation did not affect rhizosphere microbial diversity but led to changes in fungal and bacterial community composition, even when these communities were not in direct contact with the inoculant. CONCLUSIONS: This research highlights the impact of both direct and plant-mediated interactions between bio-inoculants and resident soil microbes on bio-inoculant-induced pest resistance in crop plants and underscores the importance of assessing potential adverse effects of fungal bio-inoculants on native soil communities. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s40793-025-00667-9.", "keywords": ["Environmental sciences", "Entomopathogenic fungi", "Research", "Spider mites", "GE1-350", "Arthropod pests", "Soil microbial communities", "Microbiology", "Tomato", "QR1-502"], "contacts": [{"organization": "Rasool, Shumaila, Groos, Manon, Hannula, S. Emilia, Biere, Arjen,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1186/s40793-025-00667-9"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Microbiome", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1186/s40793-025-00667-9", "name": "item", "description": "10.1186/s40793-025-00667-9", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1186/s40793-025-00667-9"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2025-01-18T00:00:00Z"}}, {"id": "10.3390/d2060910", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:19:03Z", "type": "Journal Article", "created": "2010-06-07", "description": "<p>This study evaluated microbial communities of soil (0\uffe2\uff80\uff9310 cm) as affected by dryland cropping systems under different tillage practices after 5 years. The soil type was an Olton sandy loam with an average of 16.4% clay, 67.6% sand and 0.65 g kg\uffe2\uff88\uff921 of organic matter (OM). The cropping systems evaluated were grain sorghum (Sorghum bicolor L.)\uffe2\uff80\uff94cotton (Gossypium hirsutum) (Srg-Ct), cotton-winter rye (Secale cereale)-grain sorghum (Ct-Rye-Srg), and a rotation of forage (f) sorghum (Sorghum bicolor L. and Sorghum sudanense) with winter rye (Srf-Rye), which were under no-tillage (nt) and conventional tillage (ct) practices. Soil microbial communities under cotton based cropping systems (Srg-Ct and Ct-Rye-Srg) showed lower fungal:bacterial ratios compared to the soil under Srf-Rye. Soil under Srf-Rye showed higher population densities of Bacteroidetes and Proteobacteria while lower Actinobacteria compared to Srg-Ct and Ct-Rye-Srg. Chloroflexi, Gemmatimonadetes and Verrucomicrobiae were higher in tilled soil compared to the no-tilled plots. Regardless the limited irrigation available to sustain agricultural production within these dryland cropping systems, this study demonstrated that differences in microbial communities are more affected by crop rotation than tillage management history. Although soil fungal diversity was not analyzed in this study, pyrosequencing suggests that tillage practices can affect bacterial phyla distribution in this sandy soil.</p>", "keywords": ["FAME analysis", "0301 basic medicine", "2. Zero hunger", "0303 health sciences", "QH301-705.5", "bacterial diversity", "cropping systems", "pyrosequencing; soil microbial communities; bacterial diversity; FAME analysis; enzyme activities; cropping systems; tillage; GRACEnet", "15. Life on land", "6. Clean water", "GRACEnet", "03 medical and health sciences", "pyrosequencing", "enzyme activities", "soil microbial communities", "tillage", "Biology (General)"]}, "links": [{"href": "http://www.mdpi.com/1424-2818/2/6/910/pdf"}, {"href": "https://doi.org/10.3390/d2060910"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Diversity", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/d2060910", "name": "item", "description": "10.3390/d2060910", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/d2060910"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2010-06-07T00:00:00Z"}}, {"id": "10.5061/dryad.gb5mkkwws", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:19:30Z", "type": "Dataset", "created": "2023-10-30", "title": "Biogeochemical cycles in holm oak dehesas", "description": "unspecified# Biogeochemical cycles in holm oak dehesas  [https://doi.org/10.5061/dryad.gb5mkkwws](https://doi.org/10.5061/dryad.gb5mkkwws) ## Description of the data and file structure This dataset contains data from 9 holm oak dehesas (n=162 trees) in which holm oak leaf biochemistry (photosynthetic performance index, chlorophylls, VAZ and total tocopherols), root functional parameters (fine root branching, fine root length and fine root diameter), soil functional genes (carbon, nitrogen, phosphorus and sulfur cycling) and soil chemistry (mineral nitrogen, phosphate, potassium, organic carbon, organic nitrogen, organic phosphorus and pH) are related. The dataset includes: **Aboveground leaf parameters:** * Photosynthetic performance index (PiAbs), as a proxy of the photosynthetic energy conservation. * Chlorophylls (Chl a + b, \u03bcmol m<sup>-2</sup>), as a proxy of light harvesting regulation and plant acclimation. * Violaxanthin cycle pigment pool (VAZ, violaxanthin + zeaxanthin + antheraxanthin, mmol mol Chl<sup>-1</sup>), as proxy photoprotective compounds through thermal dissipation. * Total tocopherols (mmol mol Chl<sup>-1</sup>), as a proxy of antioxidant compounds. * Defoliation (%), as a proxy of crown transparency. * Crown health. Is the linear combination of the variables mentioned above. **Belowground root parameters:** * Fine root branching. * Fine root leghth (cm). Mean length of the fine roots. * Fine root diameter (cm). Mean diameter of the fine roots. **Soil chemical analyses** * Total organic carbon content (org. C), total organic nitrogen content (org. N) and total organic phosphorus content (org. P). These analyses were expressed as mg of organic C, N or P per 100 mg of soil (%). * Mineral N (ammonium+nitrate+nitrite) was expresed as ppm, \u03bcg per g. * Phosphate was expresed as ppm, \u03bcg per g. * Potassium was expresed as ppm, \u03bcg per g. * pH **Soil microbial functional genes** * Carbon hydrolysis genes (i.e., genes involved in starch, hemicellulose, cellulose, chitin, pectin and lignin degradation). abfA, manB, Xyl, cex, pgu, glx, lig, mnp, apu, iso-plu, ammiA, sga, chiA * Carbon fixation genes. aclB,accA, mcrA, pccA, korA, smtA, frdA, rbcL, acsB, acsA, acsE. * Methane oxidation. pmoA, mmoX, mxaF, pqq-mdh * Nitrogen cycling (i.e., genes involved in N fixation, nitrification, denitrification, ammonification, anaerobic ammonium oxidation, assimilatory and dissimilatory N reduction and organic N mineralization. nifH, amoA1, amoA2, amoB, ureC, gdhA, hao, nxrA, nirS, nirK, nosZ, hzsB. * Phosphorus cycling genes (i.e., mineralization, solubilization, biosynthesis and hydrolysis of phosphorus). gcd, pqqC, phoD, phoX, phnK, ppx, ppk. * Sulfur cycling genes. soxY, yedZ, dsrA, dsrB, apsA. These genes were expresed as the abundance, gene copy number relative to 16S. The primer pairs and the encoded enzymes of the analyzed soil microbial functional genes may be found in the electronic supplementary material published in Table S2 of the manuscript.", "keywords": ["2. Zero hunger", "Quercus ilex", "defoliation", "13. Climate action", "Dehesa", "FOS: Agricultural sciences", "soil microbial communities", "14. Life underwater", "biogeochemical cycles", "15. Life on land", "soil functional genes"], "contacts": [{"organization": "Encinas-Valero, Manuel, Esteban, Raquel, Here\u015f, Ana-Mar\u00eda, Vivas, Mar\u00eda, Solla, Alejandro, Moreno, Gerardo, Corcobado, Tamara, Odriozolacrobiology, I\u00f1aki, Garbisu, Carlos, Epelde, Lur, Curiel Yuste, Jorge,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5061/dryad.gb5mkkwws"}, {"rel": "self", "type": "application/geo+json", "title": "10.5061/dryad.gb5mkkwws", "name": "item", "description": "10.5061/dryad.gb5mkkwws", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5061/dryad.gb5mkkwws"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-11-06T00:00:00Z"}}, {"id": "1959.7/uws:49662", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:22:07Z", "type": "Journal Article", "created": "2018-11-12", "title": "Ecosystem type and resource quality are more important than global change drivers in regulating early stages of litter decomposition", "description": "Closed AccessPeer reviewed", "keywords": ["2. Zero hunger", "0106 biological sciences", "Decomposition", "Litter quality", "04 agricultural and veterinary sciences", "15. Life on land", "Eutrophication", "biotic communities", "Soil microbial communities", "01 natural sciences", "climatic changes", "eutrophication", "13. Climate action", "litter (trash)", "XXXXXX - Unknown", "Climate change", "0401 agriculture", " forestry", " and fisheries", "Land use change"]}, "links": [{"href": "https://doi.org/1959.7/uws:49662"}, {"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": "1959.7/uws:49662", "name": "item", "description": "1959.7/uws:49662", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/1959.7/uws:49662"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-02-01T00:00:00Z"}}, {"id": "20.500.11755/a2f3860a-c450-4fe2-b6c2-64c9c1bf2af6", "type": "Feature", "geometry": null, "properties": {"updated": "2026-09-20T16:22:12Z", "type": "Journal Article", "created": "2025-01-18", "title": "Bioinoculant-induced plant resistance is modulated by interactions with resident soil microbes", "description": "BACKGROUND: Entomopathogenic fungi are increasingly used as bio-inoculants to enhance crop growth and resistance. When applied to rhizosphere soil, they interact with resident soil microbes, which can affect their ability to colonize and induce resistance in plants as well as modify the structure of the resident soil microbiome, either directly through interactions in the rhizosphere or indirectly, mediated by the plant. The extent to which such direct versus indirect interactions between bio-inoculants and soil microbes impact microbe-induced resistance in crops remains unclear. This study uses a split-root system to examine the effects of direct versus indirect (plant-mediated) interactions between an entomopathogenic fungus, Metarhizium brunneum, and resident soil microbes on induced resistance in tomato against two-spotted spider mites. Additionally, the study explores how these interactions influence the composition and diversity of soil fungal and bacterial communities. RESULTS: Resident soil microbes reduced the efficacy of M. brunneum to induce resistance against spider mites. This reduction occurred not only when resident microbes directly interacted with the bio-inoculant but also when they were spatially separated within the root system, indicating plant-mediated effects. M. brunneum inoculation did not affect rhizosphere microbial diversity but led to changes in fungal and bacterial community composition, even when these communities were not in direct contact with the inoculant. CONCLUSIONS: This research highlights the impact of both direct and plant-mediated interactions between bio-inoculants and resident soil microbes on bio-inoculant-induced pest resistance in crop plants and underscores the importance of assessing potential adverse effects of fungal bio-inoculants on native soil communities. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s40793-025-00667-9.", "keywords": ["Environmental sciences", "Entomopathogenic fungi", "Research", "Spider mites", "GE1-350", "Arthropod pests", "Soil microbial communities", "Microbiology", "Tomato", "QR1-502"], "contacts": [{"organization": "Rasool, Shumaila, Groos, Manon, Hannula, S. Emilia, Biere, Arjen,", "roles": ["creator"]}]}, "links": [{"href": "https://link.springer.com/content/pdf/10.1186/s40793-025-00667-9.pdf"}, {"href": "https://doi.org/20.500.11755/a2f3860a-c450-4fe2-b6c2-64c9c1bf2af6"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Microbiome", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "20.500.11755/a2f3860a-c450-4fe2-b6c2-64c9c1bf2af6", "name": "item", "description": "20.500.11755/a2f3860a-c450-4fe2-b6c2-64c9c1bf2af6", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/20.500.11755/a2f3860a-c450-4fe2-b6c2-64c9c1bf2af6"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2025-01-18T00:00:00Z"}}], "links": [{"rel": "self", "type": "application/geo+json", "title": "This document as GeoJSON", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=soil+microbial+communities&f=json", "hreflang": "en-US"}, {"rel": "alternate", "type": "text/html", "title": "This document as HTML", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=soil+microbial+communities&f=html", "hreflang": "en-US"}, {"rel": "collection", "type": "application/json", "title": "Collection URL", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main", "hreflang": "en-US"}, {"type": "application/geo+json", "rel": "first", "title": "items (first)", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=soil+microbial+communities&", "hreflang": "en-US"}, {"rel": "last", "type": "application/geo+json", "title": "items (last)", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=soil+microbial+communities&offset=7", "hreflang": "en-US"}], "numberMatched": 7, "numberReturned": 7, "distributedFeatures": [], "timeStamp": "2026-09-21T02:47:03.020989Z"}