Rumen microbiota modulation during the pre-weaning period has been suggested as means to affect animal performance later in life. In this follow-up study, we examined the post-weaning rumen microbiota development differences in monozygotic twin-heifers that were inoculated (T-group) or not inoculated (C-group) (n\uffe2\uff80\uff89=\uffe2\uff80\uff894 each) with fresh adult rumen liquid during their pre-weaning period. We also assessed the treatment effect on production parameters and methane emissions of cows during their 1st lactation period. The rumen microbiota was determined by the 16S rRNA gene, 18S rRNA gene, and ITS1 amplicon sequencing. Animal weight gain and rumen fermentation parameters were monitored from 2 to 12\uffe2\uff80\uff89months of age. The weight gain was not affected by treatment, but butyrate proportion was higher in T-group in month 3 (p\uffe2\uff80\uff89=\uffe2\uff80\uff890.04). Apart from archaea (p\uffe2\uff80\uff89=\uffe2\uff80\uff890.084), the richness of bacteria (p\uffe2\uff80\uff89<\uffe2\uff80\uff890.0001) and ciliate protozoa increased until month 7 (p\uffe2\uff80\uff89=\uffe2\uff80\uff890.004) and anaerobic fungi until month 11 (p\uffe2\uff80\uff89=\uffe2\uff80\uff890.005). The microbiota structure, measured as Bray\uffe2\uff80\uff93Curtis distances, continued to develop until months 3, 6, 7, and 10, in archaea, ciliate protozoa, bacteria, and anaerobic fungi, respectively (for all: p\uffe2\uff80\uff89=\uffe2\uff80\uff890.001). Treatment or age \uffc3\uff97 treatment interaction had a significant (p\uffe2\uff80\uff89<\uffe2\uff80\uff890.05) effect on 18 bacterial, 2 archaeal, and 6 ciliate protozoan taxonomic groups, with differences occurring mostly before month 4 in bacteria, and month 3 in archaea and ciliate protozoa. Treatment stimulated earlier maturation of prokaryote community in T-group before month 4 and earlier maturation of ciliate protozoa at month 2 (Random Forest: 0.75\uffe2\uff80\uff89month for bacteria and 1.5\uffe2\uff80\uff89month for protozoa). No treatment effect on the maturity of anaerobic fungi was observed. The milk production and quality, feed efficiency, and methane emissions were monitored during cow\uffe2\uff80\uff99s 1st lactation. The T-group had lower variation in energy-corrected milk yield (p\uffe2\uff80\uff89<\uffe2\uff80\uff890.001), tended to differ in pattern of residual energy intake over time (p\uffe2\uff80\uff89=\uffe2\uff80\uff890.069), and had numerically lower somatic cell count throughout their 1st lactation period (p\uffe2\uff80\uff89=\uffe2\uff80\uff890.081), but no differences between the groups in methane emissions (g/d, g/kg DMI, or g/kg milk) were observed. Our results demonstrated that the orally administered microbial inoculant induced transient changes in early rumen microbiome maturation. In addition, the treatment may influence the later production performance, although the mechanisms that mediate these effects need to be further explored.
", "keywords": ["microbiome modulation", "0301 basic medicine", "570", "ta412", "microbiome establishment", "Heifer", "dairy cow", "Rumen function", "Animal science", " dairy science", "Microbiology", "630", "Microbiome modulation", "QR1-502", "rumen function", "Microbiome establishment", "03 medical and health sciences", "Dairy cow", "heifer"]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2022.983823"}, {"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.2022.983823", "name": "item", "description": "10.3389/fmicb.2022.983823", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2022.983823"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-11-08T00:00:00Z"}}, {"id": "11585/996230", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:26:04Z", "type": "Journal Article", "created": "2023-10-10", "title": "Beyond PLFA: Concurrent extraction of neutral and glycolipid fatty acids provides new insights into soil microbial communities", "description": "The analysis of phospholipid fatty acids (PLFAs) is one of the most common methods used to quantify the abundance, and analyse the community structure, of soil microbes. The PLFA extraction method can yield two additional lipid fractions\u2014neutral lipids and glycolipids\u2014which potentially hold additional, valuable information on soil microbial communities. Yet its quantitative sensitivity on complete neutral lipid (NLFA) and glycolipid fatty acid (GLFA) profiles has never been validated. In this study we tested (i) if the high-throughput PLFA method can be expanded to concurrently extract complete NLFA and GLFA profiles, as well as sterols, (ii) whether taxonomic specificities of signature fatty acids are retained across the three lipid fractions in pure culture strains, and (iii) whether NLFAs and GLFAs allow soil-specific fingerprinting to the same extent as PLFA analysis. By adjusting the polarity of chloroform with 2% ethanol for solid phase extraction, pure lipid standards were fully fractionated into neutral lipids, glycolipids, and phospholipids. Sterols eluted in the neutral lipid fraction, and a betaine lipid co-eluted with phospholipids. We found consistent taxonomic specificities of fatty acid markers across the three lipid fractions by analysing pure culture extracts representative of soil microbes. Fatty acid profiles from soil extracts, however, showed stronger differences between PLFAs, NLFAs, and GLFAs than between soil types. This indicates that PLFAs and NLFAs signify different community properties (biomass vs. carbon storage, putatively), and that GLFAs are sensitive markers for community traits which behave differently than PLFAs. Although we consistently found high abundances of characteristic sterols in fungal extracts, the PLFA extraction method only yielded miniscule amounts of ergosterol from soil extracts. We argue that concomitant measurement of fatty acid profiles from all three lipid fractions is a low-effort and potentially information-rich addition to the PLFA method, and discuss its applicability for soil microbial community analyses.", "keywords": ["0301 basic medicine", "2. Zero hunger", "106022 Mikrobiologie", "0303 health sciences", "15. Life on land", "Soil lipids", "03 medical and health sciences", "106026 \u00d6kosystemforschung", "NLFA", "Ergosterol", "Ergosterol; GLFA; NLFA; Phospholipid fatty acids; Soil lipids", "Phospholipid fatty acid", "soil lipids", "Phospholipid fatty acids", "106022 Microbiology", "GLFA", "106026 Ecosystem research"]}, "links": [{"href": "https://doi.org/11585/996230"}, {"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": "11585/996230", "name": "item", "description": "11585/996230", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/11585/996230"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-12-01T00:00:00Z"}}, {"id": "10.1007/s00442-003-1391-4", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:15:05Z", "type": "Journal Article", "created": "2003-12-10", "title": "Carbon Availability Controls The Growth Of Detritivores (Lumbricidae) And Their Effect On Nitrogen Mineralization", "description": "Activity of soil decomposer microorganisms is generally limited by carbon availability, but factors controlling saprophagous soil animals remain largely unknown. In contrast to microorganisms, animals are unable to exploit mineral nutrient pools. Therefore, it has been suggested that soil animals, and earthworms in particular, are limited by the availability of nitrogen. In contrast to this view, a strong increase in density and biomass of endogeic earthworms in response to labile organic carbon addition has been documented in field experiments. The hypothesis that the growth of endogeic earthworms is primarily limited by carbon availability was tested in a laboratory experiment lasting for 10 weeks. In addition, it was investigated whether the effects of earthworms on microbial activity and nutrient mineralization depend on the availability of carbon resources. We manipulated food availability to the endogeic earthworm species Octolasion tyrtaeum by using two soils with different organic matter content, providing access to different amounts of soil, and adding labile organic carbon (glucose) enriched in (13)C. Glucose addition strongly increased the growth of O. tyrtaeum. From 8 to 17% of the total C in earthworm tissue was assimilated from the glucose added. Soil microbial biomass was not strongly affected by the addition of glucose, though basal respiration was significantly increased and up to 50% of the carbon added as glucose was incorporated into soil organic matter. The impact of earthworms on the mineralization and leaching of nitrogen depended on C availability. As expected, in C-limited soil, the presence of earthworms strongly increased nitrogen leaching. However, when C availability was increased by the addition of glucose, this pattern was reversed, i.e. the presence of O. tyrtaeum decreased nitrogen leaching and its availability to soil microflora. We conclude that irrespective of the total carbon content of soils, O. tyrtaeum was primarily limited by carbon, and that increased carbon availability allowed earthworms to be more effective in mobilizing N. The presence of earthworms increases C limitation of soil microorganisms, due to increased availability of N and P in earthworm casts or a direct depletion of easily available carbon resources by earthworms.", "keywords": ["0106 biological sciences", "2. Zero hunger", "Carbon Isotopes", "Nitrogen", "Population Dynamics", "Biological Availability", "Phosphorus", "04 agricultural and veterinary sciences", "15. Life on land", "01 natural sciences", "Carbon", "Soil", "Animals", "0401 agriculture", " forestry", " and fisheries", "Oligochaeta", "Soil Microbiology"]}, "links": [{"href": "https://doi.org/10.1007/s00442-003-1391-4"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Oecologia", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00442-003-1391-4", "name": "item", "description": "10.1007/s00442-003-1391-4", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00442-003-1391-4"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2004-01-01T00:00:00Z"}}, {"id": "10.1007/s00442-004-1788-8", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:15:05Z", "type": "Journal Article", "created": "2005-02-01", "title": "Effects Of Fire On Properties Of Forest Soils: A Review", "description": "Many physical, chemical, mineralogical, and biological soil properties can be affected by forest fires. The effects are chiefly a result of burn severity, which consists of peak temperatures and duration of the fire. Climate, vegetation, and topography of the burnt area control the resilience of the soil system; some fire-induced changes can even be permanent. Low to moderate severity fires, such as most of those prescribed in forest management, promote renovation of the dominant vegetation through elimination of undesired species and transient increase of pH and available nutrients. No irreversible ecosystem change occurs, but the enhancement of hydrophobicity can render the soil less able to soak up water and more prone to erosion. Severe fires, such as wildfires, generally have several negative effects on soil. They cause significant removal of organic matter, deterioration of both structure and porosity, considerable loss of nutrients through volatilisation, ash entrapment in smoke columns, leaching and erosion, and marked alteration of both quantity and specific composition of microbial and soil-dwelling invertebrate communities. However, despite common perceptions, if plants succeed in promptly recolonising the burnt area, the pre-fire level of most properties can be recovered and even enhanced. This work is a review of the up-to-date literature dealing with changes imposed by fires on properties of forest soils. Ecological implications of these changes are described.", "keywords": ["Nitrogen", "Phosphorus", "Fire", " Forest ecosystems", " Forest soils", " Soil ecology", " Soil properties.", "04 agricultural and veterinary sciences", "15. Life on land", "Invertebrates", "01 natural sciences", "Carbon", "Fires", "Trees", "Soil", "13. Climate action", "Animals", "0401 agriculture", " forestry", " and fisheries", "Hydrophobic and Hydrophilic Interactions", "Soil Microbiology", "0105 earth and related environmental sciences"], "contacts": [{"organization": "CERTINI, GIACOMO", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1007/s00442-004-1788-8"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Oecologia", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00442-004-1788-8", "name": "item", "description": "10.1007/s00442-004-1788-8", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00442-004-1788-8"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2005-02-02T00:00:00Z"}}, {"id": "10.1007/s00248-003-9001-x", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:14:56Z", "type": "Journal Article", "created": "2004-06-15", "title": "Microbial Community Structure And Oxidative Enzyme Activity In Nitrogen-Amended North Temperate Forest Soils", "description": "Large regions of temperate forest are subject to elevated atmospheric nitrogen (N) deposition which can affect soil organic matter dynamics by altering mass loss rates, soil respiration, and dissolved organic matter production. At present there is no general model that links these responses to changes in the organization and operation of microbial decomposer communities. Toward that end, we studied the response of litter and soil microbial communities to high levels of N amendment (30 and 80 kg ha(-1) yr(-1)) in three types of northern temperate forest: sugar maple/basswood (SMBW), sugar maple/red oak (SMRO), and white oak/black oak (WOBO). We measured the activity of extracellular enzymes (EEA) involved directly in the oxidation of lignin and humus (phenol oxidase, peroxidase), and indirectly, through the production of hydrogen peroxide (glucose oxidase, glyoxal oxidase). Community composition was analyzed by extracting and quantifying phospholipid fatty acids (PLFA) from soils. Litter EEA responses at SMBW sites diverged from those at oak-bearing sites (SMRO, BOWO), but the changes were not statistically significant. For soil, EEA responses were consistent across forests types: phenol oxidase and peroxidase activities declined as a function of N dose (33-73% and 5-41%, respectively, depending on forest type); glucose oxidase and glyoxal oxidase activities increased (200-400% and 150-300%, respectively, depending on forest type). Principal component analysis (PCA) ordinated forest types and treatment responses along two axes; factor 1 (44% of variance) was associated with phenol oxidase and peroxidase activities, factor 2 (31%) with glucose oxidase. Microbial biomass did not respond to N treatment, but nine of the 23 PLFA that formed >1 mol% of total biomass showed statistically significant treatment responses. PCA ordinated forest types and treatment responses along three axes (36%, 26%, 12% of variance). EEA factors 1 and 2 correlated negatively with PLFA factor 1 ( r = -0.20 and -0.35, respectively, n = 108) and positively with PLFA factor 3 ( r = +0.36 and +0.20, respectively, n = 108). In general, EEA responses were more strongly tied to changes in bacterial PLFA than to changes in fungal PLFA. Collectively, our data suggests that N inhibition of oxidative activity involves more than the repression of ligninase expression by white-rot basidiomycetes.", "keywords": ["Michigan", "Nitrogen", "Science", "Ecology and Evolutionary Biology", "Nature Conservation", "Microbiology", "Trees", "Soil", "Geoecology/Natural Processes", "Health Sciences", "Cellular and Developmental Biology", "Ecosystem", "Phospholipids", "Soil Microbiology", "2. Zero hunger", "Analysis of Variance", "Principal Component Analysis", "Ecology", "Life Sciences", "Natural Resources and Environment", "Molecular", "04 agricultural and veterinary sciences", "15. Life on land", "Enzymes", "13. Climate action", "0401 agriculture", " forestry", " and fisheries"]}, "links": [{"href": "https://doi.org/10.1007/s00248-003-9001-x"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microbial%20Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00248-003-9001-x", "name": "item", "description": "10.1007/s00248-003-9001-x", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00248-003-9001-x"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2004-04-19T00:00:00Z"}}, {"id": "10.1002/ecy.1513", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:14:35Z", "type": "Journal Article", "created": "2016-07-02", "title": "Land Use Intensification In The Humid Tropics Increased Both Alpha And Beta Diversity Of Soil Bacteria", "description": "AbstractAnthropogenic pressures on tropical forests are rapidly intensifying, but our understanding of their implications for biological diversity is still very limited, especially with regard to soil biota, and in particular soil bacterial communities. Here we evaluated bacterial community composition and diversity across a gradient of land use intensity in the eastern Amazon from undisturbed primary forest, through primary forests varyingly disturbed by fire, regenerating secondary forest, pasture, and mechanized agriculture. Soil bacteria were assessed by paired\uffe2\uff80\uff90end Illumina sequencing of 16S rRNA gene fragments (V4 region). The resulting sequences were clustered into operational taxonomic units (OTU) at a 97% similarity threshold. Land use intensification increased the observed bacterial diversity (both OTU richness and community heterogeneity across space) and this effect was strongly associated with changes in soil pH. Moreover, land use intensification and subsequent changes in soil fertility, especially pH, altered the bacterial community composition, with pastures and areas of mechanized agriculture displaying the most contrasting communities in relation to undisturbed primary forest. Together, these results indicate that tropical forest conversion impacts soil bacteria not through loss of diversity, as previously thought, but mainly by imposing marked shifts on bacterial community composition, with unknown yet potentially important implications for ecological functions and services performed by these communities.
", "keywords": ["Rios de composi\u00e7\u00e3o de comunidade bacteriana", "2. Zero hunger", "0301 basic medicine", "570", "0303 health sciences", "550", "Bacteria", "Biodiversidade subterr\u00e2nea", "Agriculture", "Biodiversity", "Forests", "15. Life on land", "Below\u2010ground biodiversity", "High\u2010throughput sequencing", "Soil", "03 medical and health sciences", "RNA", " Ribosomal", " 16S", "Sequenciamento de alto rendimento", "Rivers of bacterial community composition", "Soil Microbiology"]}, "links": [{"href": "https://eprints.lancs.ac.uk/id/eprint/82660/1/de_Carvalho_et_al_2016_raw_pdf.pdf"}, {"href": "https://doi.org/10.1002/ecy.1513"}, {"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": "10.1002/ecy.1513", "name": "item", "description": "10.1002/ecy.1513", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1002/ecy.1513"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2016-09-09T00:00:00Z"}}, {"id": "10.1002/etc.5400", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:14:36Z", "type": "Journal Article", "created": "2022-06-09", "title": "Arbuscular Mycorrhizal Fungi and the Need for a Meaningful Regulatory Plant Protection Product Testing Strategy", "description": "AbstractArbuscular mycorrhizal fungi (AMF) perform key soil ecosystem services and, because of their symbiotic relationship with plant roots, may be exposed to the plant protection products (PPPs) applied to soils and crops. In 2017, the European Food Safety Authority (EFSA) released a scientific opinion addressing the state of the science on risk assessment of PPPs for in-soil organisms, recommending the inclusion of AMF ecotoxicological testing in the PPP regulatory process. However, it is not clear how this can be implemented in a tiered, robust, and ecologically relevant manner. Through a critical review of current literature, we examine the recommendations made within the EFSA report and the methodologies available to integrate AMF into the PPP risk assessment and provide perspective and commentary on their agronomic and ecological relevance. We conclude that considerable research questions remain to be addressed prior to the inclusion of AMF into the in-soil organism risk assessment, many of which stem from the unique challenges associated with including an obligate symbiont within the PPP risk assessment. Finally, we highlight critical knowledge gaps and the further research required to enable development of relevant, reliable, and robust scientific tests alongside pragmatic and scientifically sound guidance to ensure that any future risk-assessment paradigm is adequately protective of the ecosystem services it aims to preserve. Environ Toxicol Chem 2022;41:1808\uffe2\uff80\uff931823. \uffc2\uffa9 2022 The Authors. Environmental Toxicology and Chemistry published by Wiley Periodicals LLC on behalf of SETAC.
We incubated temperate forest soil at constant temperature (20 \u00b0C) and water content, and exposed it to strong single-pulse perturbations, which nonetheless mimic common pulse-events in temperate soils (glucose addition at 4 mg g\u22121 soil, or freeze-thawing overnight at \u221220 \u00b0C). We subsequently measured microbial community composition and microbial storage compounds via phospho- and neutral lipid fatty acid (PLFA and NLFA) profiling, as well as C/N stoichiometry of microbial biomass and dissolved organic carbon and nitrogen in the soil solution shortly after (0.4, 1, 4, and 6 days) and after longer time periods (84 and 160 days) following the perturbations.
Transferring the soils from their natural environment to the laboratory and incubating them under controlled conditions led to a continuous change of microbial community structure over time, along with an increase in microbial biomass and dissolved N in both perturbed and control soils over the time of the experiment. Against the background of this \u2018press-disturbance\u2019, caused by the permanently changed conditions, we see immediate and long-lasting effects of the single pulse events on microbial community composition, C storage and C/N stoichiometry. Both perturbations significantly influenced the microbial community structure (based on PLFA profiles), microbial biomass N and dissolved N up to 160 days, as well as fungal and bacterial biomass and storage (based on absolute PLFA and NLFA concentrations) up to 84 days. Both perturbations increased microbial N (+59.6 \u00b5g g\u22121 dw) and decreased dissolved N (\u221240.3 \u00b5g g\u22121 dw) after 160 days, and significantly altered C/N ratios in microbial and dissolved pools (particularly in the first 6 days of the experiment).
Our results demonstrate that single-pulse perturbations can have long-term legacies in soil microbial ecosystems. In our experiment they led to alternative system states which differed from the unperturbed control in multiple parameters even after 160 days. This indicates that soil microbial communities exhibit a low resistance and resilience towards single-pulse perturbations, and may easily be pushed on alternative trajectories by short but strong environmental pulses.", "keywords": ["0301 basic medicine", "2. Zero hunger", "106022 Mikrobiologie", "0303 health sciences", "Resilience", "04 agricultural and veterinary sciences", "15. Life on land", "Perturbations", "6. Clean water", "Transient state", "Pulse event", "03 medical and health sciences", "106026 \u00d6kosystemforschung", "13. Climate action", "Soil microbial community", "106022 Microbiology", "0401 agriculture", " forestry", " and fisheries", "106026 Ecosystem research"]}, "links": [{"href": "https://doi.org/10.1016/j.geoderma.2023.116399"}, {"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": "10.1016/j.geoderma.2023.116399", "name": "item", "description": "10.1016/j.geoderma.2023.116399", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.geoderma.2023.116399"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-04-01T00:00:00Z"}}, {"id": "10.1016/j.envres.2019.108608", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:16:39Z", "type": "Journal Article", "created": "2019-07-26", "title": "Antibiotic resistance gene distribution in agricultural fields and crops. A soil-to-food analysis", "description": "Despite the social concern about the generalization of antibiotic resistance hotspots worldwide, very little is known about the contribution of different potential sources to the global risk. Here we present a quantitative analysis of the distribution of Antibiotic Resistance Genes (ARGs) in soil, rhizospheric soil, roots, leaves and beans in tomato, lettuce and broad beans crops (165 samples in total), grown in nine commercial plots distributed in four geographical zones in the vicinity of Barcelona (North East Spain). We also analyzed five soil samples from a nearby forest, with no record of agricultural activities. DNA samples were analyzed for their content in the ARGs sul1, tetM, qnrS1, blaCTX-M-32, blaOXA-58, mecA, and blaTEM, plus the integron intI1, using qPCR methods. In addition, soil microbiomes from the different plots were analyzed by amplicon-targeted 16S rRNA gene sequencing. Our data show a decreasing gradient of ARG loads from soil to fruits and beans, the latter showing only from 0.1 to 0.01% of the abundance values in soil. The type of crop was the main determinant for both ARG distribution and microbiome composition among the different plots, with minor contributions of geographic location and irrigation water source. We propose that soil amendment and/or fertilization, more than irrigation water, are the main drivers of ARG loads on the edible parts of the crop, and that they should therefore be specifically controlled.", "keywords": ["0301 basic medicine", "2. Zero hunger", "Microbiomes", "Agriculture", "Drug Resistance", " Microbial", "Irrigation water", "15. Life on land", "01 natural sciences", "6. Clean water", "Anti-Bacterial Agents", "3. Good health", "qPCR", "Soil", "03 medical and health sciences", "Antibiotic resistance genes", "Genes", " Bacterial", "Spain", "RNA", " Ribosomal", " 16S", "Rhizosphere", "Endophytes", "Food Analysis", "Soil Microbiology", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1016/j.envres.2019.108608"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Research", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.envres.2019.108608", "name": "item", "description": "10.1016/j.envres.2019.108608", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.envres.2019.108608"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-10-01T00:00:00Z"}}, {"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": "10.1016/j.scitotenv.2016.05.073", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:17:22Z", "type": "Journal Article", "created": "2016-06-09", "title": "Associations Between Soil Bacterial Community Structure And Nutrient Cycling Functions In Long-Term Organic Farm Soils Following Cover Crop And Organic Fertilizer Amendment", "description": "Agricultural management practices can produce changes in soil microbial populations whose functions are crucial to crop production and may be detectable using high-throughput sequencing of bacterial 16S rRNA. To apply sequencing-derived bacterial community structure data to on-farm decision-making will require a better understanding of the complex associations between soil microbial community structure and soil function. Here 16S rRNA sequencing was used to profile soil bacterial communities following application of cover crops and organic fertilizer treatments in certified organic field cropping systems. Amendment treatments were hairy vetch (Vicia villosa), winter rye (Secale cereale), oilseed radish (Raphanus sativus), buckwheat (Fagopyrum esculentum), beef manure, pelleted poultry manure, Sustane(\u00ae) 8-2-4, and a no-amendment control. Enzyme activities, net N mineralization, soil respiration, and soil physicochemical properties including nutrient levels, organic matter (OM) and pH were measured. Relationships between these functional and physicochemical parameters and soil bacterial community structure were assessed using multivariate methods including redundancy analysis, discriminant analysis, and Bayesian inference. Several cover crops and fertilizers affected soil functions including N-acetyl-\u03b2-d-glucosaminidase and \u03b2-glucosidase activity. Effects, however, were not consistent across locations and sampling timepoints. Correlations were observed among functional parameters and relative abundances of individual bacterial families and phyla. Bayesian analysis inferred no directional relationships between functional activities, bacterial families, and physicochemical parameters. Soil functional profiles were more strongly predicted by location than by treatment, and differences were largely explained by soil physicochemical parameters. Composition of soil bacterial communities was predictive of soil functional profiles. Differences in soil function were better explained using both soil physicochemical test values and bacterial community structure data than using soil tests alone. Pursuing a better understanding of bacterial community composition and how it is affected by farming practices is a promising avenue for increasing our ability to predict the impact of management practices on important soil functions.", "keywords": ["Crops", " Agricultural", "2. Zero hunger", "Environmental Engineering", "Farms", "Bacteria", "Microbiota", "Agriculture", "04 agricultural and veterinary sciences", "15. Life on land", "Pollution", "6. Clean water", "RNA", " Bacterial", "Soil", "13. Climate action", "RNA", " Ribosomal", " 16S", "Environmental Chemistry", "0401 agriculture", " forestry", " and fisheries", "Fertilizers", "Waste Management and Disposal", "Soil Microbiology", "Environmental Monitoring"]}, "links": [{"href": "https://doi.org/10.1016/j.scitotenv.2016.05.073"}, {"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": "10.1016/j.scitotenv.2016.05.073", "name": "item", "description": "10.1016/j.scitotenv.2016.05.073", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.scitotenv.2016.05.073"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2016-10-01T00:00:00Z"}}, {"id": "oai:opus.uni-hohenheim.de:2046", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:35:07Z", "type": "Report", "title": "Soil microorganisms as hidden miners of phosphorus in soils under different cover crop and tillage treatments", "description": "Phosphorus (P) is one of the most limiting plant nutrients for agricultural production. The soil microbial community plays a key role in nutrient cycling, affecting access of roots to P, as well as mobilization and mineralization of organic P (Porg). This thesis aimed to better understand the potential of cover crops to enhance plant-soil-microbe interactions to improve the availability of P. This dissertation consists of a meta-analysis of and two field experiments. The used methods showed that microbial P, the activity of P-cycling enzymes and PLFAs increased under cover crops, indicating an enhanced potential for organic P cycling. Gram- positive and Gram-negative bacteria, and to a lesser extent also arbuscular mycorrhizal fungi, increased their abundance with cover crops. However, saprotrophic fungi could benefit most from the substrate input derived from cover crop roots or litter. Enzyme-stable Porg shifted towards pools of a greater lability in the active soil compartments (rhizosheath and detritusphere). The effects of agricultural management, such as cover crop species choice and tillage, were detectable, but weaker compared to the effect of the presence of cover crops. With the obtained results, the research aims of this thesis could be successfully addressed. We were able to confirm that cover crops have the potential to improve main crops\u0092 access to P. Furthermore, we presented and discussed three pathways of P benefit. In the plant biomass pathway, P is cycled through cover crop biomass and becomes available for the main crop upon litter decomposition. The microbial enhancement pathway describes how the cover crop\u0092s interaction with soil microbes increases their abundance and activity, thereby increasing the availability of Porg. Some cover crop species seem to be capable of utilizing a biochemical modification pathway, where changes in the sorption capacity of the soil result in a greater quantity of plant-available phosphate. However, the latter pathway was apparently not important in the crop rotations used in our field experiments. The data also allowed us to characterize ways in which plant-soil-microbe interactions under cover crops affected the relationship of soil microbial functions to the enzymatic availability of Porg pools. Cover crops increased the abundance and activity of microbes, especially fungi, as well as microbial P. This enhancement in P-cycling potential shifted Porg toward pools of greater availability to added enzymes. However, the relation between enzymes and Porg pools is complex and is possibly affected by soil P composition and other site characteristics, indicating the need for further research in this area. Finally, we elucidated how the choice of cover crop species and agricultural management can shift the relative importance of the pathways for the P benefit of the main crop, while site-specific management allows farmers to adapt to local conditions and to optimize the functions of their agroecosystems. In conclusion, our results indicate that the pathways of cover crop derived P benefit take place simultaneously. We confirmed the potential of cover crop biomass for the cycling of P, and we suggest that our observed increases in the availability of soil Porg are related to microbial abundance and activity. The interactions of cover cropping and tillage indicate also that P benefit can be optimized by management decisions. Finally, these new insights into soil phosphorus cycling in agroecosystems have the potential to support further development of more sustainable agricultural systems. Phosphor (P) ist einer der wichtigsten limitierenden Naehrstoffe fuer das Pflanzenwachstum in der Landwirtschaft. Bodenmikroben spielen eine Schluesselrolle in Naehrstoffkreislaeufen, beeinflussen das Wachstum von Pflanzenwurzeln, die Mobilisierung sowie die Mineralisierung von organischem P (Porg) und somit den Zugang zu P. Das Ziel dieser Dissertation war die Einschaetzung des Potentials von Zwischenfruechten zur Verbesserung der Interaktionen im System Pflanze-Boden-Mikroben und einer dadurch moeglichen Steigerung der P-Verfuegbarkeit fuer die Hauptfruechte. Diese Dissertation umfasst drei wissenschaftliche Veroeffentlichungen: Eine Literaturrecherche und Meta-Analyse sowie zwei selbst durchgefuehrte Feldexperimente. Die verwendeten Methoden zeigten, dass Zwischenfruechte den P-Gehalt in der mikrobiellen Biomasse, die Aktivitaet von Phosphatasen und mikrobielle Fettsaeuremarker (PLFAs) erhoehen, was auf ein gesteigertes Umsatzpotential von organischen Phosphorverbindungen hindeutet. Die Abundanz von grampositiven und gramnegativen Bakterien, sowie in geringerem Umfang auch von arbuskulaeren Mykorrhizapilzen, wurde durch Zwischenfruechte erhoeht. Gleichwohl waren saprotrophe Bodenpilze die mikrobielle Gruppe, die am meisten von der Substratzufuhr der Wurzeln und Streu profitieren konnte. Stabiles P wurde in den aktiven Bodenzonen der Rhizosphaere und Detritusphaere in labilere Porg-Pools transformiert. Bewirtschaftungseffekte, wie die Wahl der Zwischenfrucht oder Bodenbearbeitung, waren erkennbar, aber wesentlich schwaecher ausgepraegt als der Zwischenfruchteffekt insgesamt. Unsere Ergebnisse bestaetigen, dass Zwischenfruchtanbau zur Steigerung der P - Verfuegbarkeit fuer die Hauptfrucht fuehren kann. Darueber hinaus konnten wir fuer den P- Vorteil drei grundsaetzliche Wirkungspfade aufzeigen, die in aktiven Bodenraeumen stattfinden. UEber den Wirkungspfad \u0084Pflanzenbiomasse\u0093 wird P aus dem Boden in die Biomasse der Zwischenfrucht aufgenommen und waehrend der Zersetzung der Streu fuer die Hauptfrucht verfuegbar. UEber den Wirkungspfad \u0084mikrobielle Verstaerkung\u0093 steigert die Zwischenfrucht im Wurzelraum die Biomasse und Aktivitaet der mikrobiellen Gemeinschaft, wodurch diese die Verfuegbarkeit von Porg erhoehen kann. Durch den Wirkungspfad \u0084biochemische Modifikation\u0093 scheinen manche Zwischenfruchtarten in der Lage zu sein, ueber Wurzelexsudate die P-Sorption im Boden zu senken und dadurch den Anteil an pflanzenverfuegbarem Phosphat zu erhoehen. Weiterhin ermoeglichen die erhobenen Daten die Diskussion, inwiefern mikrobielle Funktionen und die Mineralisierbarkeit von Porg zusammenhaengen und wie die Interaktionen von Pflanzen beeinflusst werden. Zwischenfruechte steigerten sowohl die Abundanz und Aktivitaet von Mikroben, als auch die Menge an P in der mikrobiellen Biomasse. Diese Potentialsteigerung des P-Kreislaufs steigerte die Verfuegbarkeit des Porg fuer zugefuegte Enzyme. Es muss bedacht werden, dass die Rueckkopplungen zwischen Enzymaktivitaet und verschiedenen Porg-Pools komplex sind. Diese haengen von den lokalen Eigenschaften des Bodens, wie etwa der Zusammensetzung des P-Vorrats, ab und sollten durch zukuenftige Studien geklaert werden. Drittens zeigen unsere Untersuchungen, wie die Wahl der Zwischenfrucht und die der Bewirtschaftung (z.B. Bodenbearbeitung oder Fruchtfolge) die relative Gewichtung der verschiedenen Pfade des P-Vorteils fuer die Hauptfrucht beeinflussen. Standortangepasste Zwischenfruchtsysteme erlauben es Landwirt:innen, die Funktionen ihres Agrooekosystems hinsichtlich der lokalen Bedingungen zu optimieren. Zusammenfassend bestaetigen unsere Ergebnisse, dass der P-Bedarf der Hauptfrucht ueber die Biomasse der Zwischenfrucht gedeckt werden kann und zeigen auf, dass die charakterisierten drei Pfade des P-Vorteils durch Zwischenfruchtanbau parallel stattfinden. Schlie\u00dflich koennen die hier gewonnenen Erkenntnisse ueber den Phosphorkreislauf, basierend auf der Kombination von bodenmikrobiologischen Methoden mit der Charakterisierung der Labilitaet von Porg, zur zukuenftigen Entwicklung einer nachhaltigeren Landwirtschaft beitragen.", "keywords": ["830", "Bodenmikrobiologie", "Fruchtfolge", "phosphorus mobilization", "Agriculture", "Phosphor", "N\u00e4hrstoffkreislauf", "Zwischenfrucht", "630", "soil microbiology", "Bodenmikroorganismus", "sustainable agriculture", "nutrient management", "ddc:630", "Phosphorkreislauf"], "contacts": [{"organization": "Hallama, Moritz", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/oai:opus.uni-hohenheim.de:2046"}, {"rel": "self", "type": "application/geo+json", "title": "oai:opus.uni-hohenheim.de:2046", "name": "item", "description": "oai:opus.uni-hohenheim.de:2046", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/oai:opus.uni-hohenheim.de:2046"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-01-01T00:00:00Z"}}, {"id": "PMC5507504", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:29:45Z", "type": "Journal Article", "created": "2017-07-13", "title": "Organic farming enhances soil microbial abundance and activity\u2014A meta-analysis and meta-regression", "description": "Population growth and climate change challenge our food and farming systems and provide arguments for an increased intensification of agriculture. A promising option is eco-functional intensification through organic farming, an approach based on using and enhancing internal natural resources and processes to secure and improve agricultural productivity, while minimizing negative environmental impacts. In this concept an active soil microbiota plays an important role for various soil based ecosystem services such as nutrient cycling, erosion control and pest and disease regulation. Several studies have reported a positive effect of organic farming on soil health and quality including microbial community traits. However, so far no systematic quantification of whether organic farming systems comprise larger and more active soil microbial communities compared to conventional farming systems was performed on a global scale. Therefore, we conducted a meta-analysis on current literature to quantify possible differences in key indicators for soil microbial abundance and activity in organic and conventional cropping systems. All together we integrated data from 56 mainly peer-reviewed papers into our analysis, including 149 pairwise comparisons originating from different climatic zones and experimental duration ranging from 3 to more than 100 years. Overall, we found that organic systems had 32% to 84% greater microbial biomass carbon, microbial biomass nitrogen, total phospholipid fatty-acids, and dehydrogenase, urease and protease activities than conventional systems. Exclusively the metabolic quotient as an indicator for stresses on microbial communities remained unaffected by the farming systems. Categorical subgroup analysis revealed that crop rotation, the inclusion of legumes in the crop rotation and organic inputs are important farming practices affecting soil microbial community size and activity. Furthermore, we show that differences in microbial size and activity between organic and conventional farming systems vary as a function of land use (arable, orchards, and grassland), plant life cycle (annual and perennial) and climatic zone. In summary, this study shows that overall organic farming enhances total microbial abundance and activity in agricultural soils on a global scale.", "keywords": ["Crops", " Agricultural", "2. Zero hunger", "Organic Agriculture", "Science", "Climate", "Microbiota", "Q", "R", "Fabaceae", "04 agricultural and veterinary sciences", "15. Life on land", "13. Climate action", "Life Science", "Medicine", "0401 agriculture", " forestry", " and fisheries", "Biomass", "Soil Microbiology", "Research Article"]}, "links": [{"href": "https://doi.org/PMC5507504"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PLOS%20ONE", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "PMC5507504", "name": "item", "description": "PMC5507504", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PMC5507504"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-07-12T00:00:00Z"}}, {"id": "10.1007/s13213-014-0889-9", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:15:48Z", "type": "Journal Article", "created": "2014-04-21", "title": "Influence Of Long-Term Fertilization On Soil Microbial Biomass, Dehydrogenase Activity, And Bacterial And Fungal Community Structure In A Brown Soil Of Northeast China", "description": "In this study, the effect of mineral fertilizer and organic manure were evaluated on soil microbial biomass, dehydrogenase activity, bacterial and fungal community structure in a long-term (33\u00a0years) field experiment. Except for the mineral nitrogen fertilizer (N) treatment, long-term fertilization greatly increased soil microbial biomass carbon (SMBC) and dehydrogenase activity. Organic manure had a significantly greater impact on SMBC and dehydrogenase activity, compared with mineral fertilizers. Bacterial and fungal community structure was analyzed by polymerase chain reaction (PCR)-denaturing gradient gel electrophoresis (DGGE). Long-term fertilization increased bacterial and fungal ribotype diversity. Total soil nitrogen (TN) and phosphorus (TP), soil organic carbon (SOC) and available phosphorus (AP) had a similar level of influence on bacterial ribotypes while TN, SOC and AP had a larger influence than alkali-hydrolyzable nitrogen (AHN) on fungal ribotypes. Our results suggested that long-term P-deficiency fertilization can significantly decrease soil microbial biomass, dehydrogenase activity and bacterial diversity. N-fertilizer and SOC have an important influence on bacterial and fungal communities.", "keywords": ["2. Zero hunger", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "Original Article", "04 agricultural and veterinary sciences", "15. Life on land", "Applied Microbiology and Biotechnology", "3. Good health"], "contacts": [{"organization": "Hongzhi Bai, Mei Han, Xiaori Han, Yan Wang, Hui Shi, Liu Ning, Luo Peiyu,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1007/s13213-014-0889-9"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Annals%20of%20Microbiology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s13213-014-0889-9", "name": "item", "description": "10.1007/s13213-014-0889-9", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s13213-014-0889-9"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2014-04-22T00:00:00Z"}}, {"id": "10.1007/s13225-024-00533-y", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:15:48Z", "type": "Journal Article", "created": "2024-02-26", "title": "Class-wide genomic tendency throughout specific extremes in black fungi", "description": "Open AccessPeer reviewed", "keywords": ["570", "Black Fungi", "Plant Biology", "Mycology & Parasitology", "Evolutionary biology", "Microbiology", "Genetics", "Black fungi \u00b7 Stress resistance \u00b7 Comparative genomics \u00b7 Extreme environments", "14. Life underwater", "Plant biology", "2. Zero hunger", "Evolutionary Biology", "Black fungi", "Comparative genomics", "Human Genome", "500", "Extreme environments", "Biological Sciences", "15. Life on land", "3. Good health", "Health Disparities", "13. Climate action", "8. Economic growth", "Stress resistance", "Settore BIO/19 - MICROBIOLOGIA GENERALE", "Biotechnology"]}, "links": [{"href": "https://iris.unitn.it/bitstream/11572/450837/1/FUDI_Coleine%20et%20al%20v2..pdf"}, {"href": "https://iris.unitn.it/bitstream/11572/450837/3/s13225-024-00533-y.pdf"}, {"href": "https://escholarship.org/content/qt86f967px/qt86f967px.pdf"}, {"href": "https://doi.org/10.1007/s13225-024-00533-y"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Fungal%20Diversity", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s13225-024-00533-y", "name": "item", "description": "10.1007/s13225-024-00533-y", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s13225-024-00533-y"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-02-26T00:00:00Z"}}, {"id": "10.1002/ecy.2936", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:14:35Z", "type": "Journal Article", "created": "2019-11-21", "title": "Soil chemistry turned upside down: a meta\u2010analysis of invasive earthworm effects on soil chemical properties", "description": "AbstractRecent studies have shown that invasive earthworms can dramatically reduce native biodiversity, both above and below the ground. However, we still lack a synthetic understanding of the underlying mechanisms behind these changes, such as whether earthworm effects on soil chemical properties drive such relationships. Here, we investigated the effects of invasive earthworms on soil chemical properties (pH, water content, and the stocks and fluxes of carbon, nitrogen, and phosphorus) by conducting a meta\uffe2\uff80\uff90analysis. Invasive earthworms generally increased soil pH, indicating that the removal of organic layers and the upward transport of more base\uffe2\uff80\uff90rich mineral soil caused a shift in soil pH. Moreover, earthworms significantly decreased soil water content, suggesting that the burrowing activities of earthworms may have increased water infiltration of and/or increased evapotranspiration from soil. Notably, invasive earthworms had opposing effects on organic and mineral soil for carbon and nitrogen stocks, with decreases in organic, and increases in mineral soil. Nitrogen fluxes were higher in mineral soil, whereas fluxes in organic soil were not significantly affected by the presence of invasive earthworms, indicating that earthworms mobilize and redistribute nutrients among soil layers and increase overall nitrogen loss from the soil. Invasive earthworm effects on element stocks increased with ecological group richness only in organic soil. Earthworms further decreased ammonium stocks with negligible effects on nitrate stocks in organic soil, whereas they increased nitrate stocks but not ammonium stocks in mineral soil. Notably, all of these results were consistent across forest and grassland ecosystems underlining the generality of our findings. However, we found some significant differences between studies that were conducted in the field (observational and experimental settings) and in the lab, such as that the effects on soil pH decreased from field to lab settings, calling for a careful interpretation of lab findings. Our meta\uffe2\uff80\uff90analysis provides strong empirical evidence that earthworm invasion may lead to substantial changes in soil chemical properties and element cycling in soil. Furthermore, our results can help explain the dramatic effects of invasive earthworms on native biodiversity, for example, shifts towards the dominance of grass species over herbaceous ones, as shown by recent meta\uffe2\uff80\uff90analyses.
", "keywords": ["Element flux", "Nitrogen", "Earthworm ecological group", "Forests", "Nitrate", "exotic earthworms", "Nutrient cycling", "nitrogen", "Article", "earthworm ecological group", "Soil", "nitrate", "Animals", "phosphorus", "soil carbon", "Oligochaeta", "Ecosystem", "Soil Microbiology", "water content", "Exotic earthworms", "2. Zero hunger", "Water content", "Plan_S-Compliant-TA", "pH", "nutrient cycling", "Phosphorus", "04 agricultural and veterinary sciences", "15. Life on land", "Nitrification", "Soil carbon", "nitrification", "ammonium", "13. Climate action", "international", "0401 agriculture", " forestry", " and fisheries", "element flux", "Ammonium"]}, "links": [{"href": "https://esajournals.onlinelibrary.wiley.com/doi/pdf/10.1002/ecy.2936"}, {"href": "https://doi.org/10.1002/ecy.2936"}, {"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": "10.1002/ecy.2936", "name": "item", "description": "10.1002/ecy.2936", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1002/ecy.2936"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-01-08T00:00:00Z"}}, {"id": "10.1002/ecs2.4754", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:14:35Z", "type": "Journal Article", "created": "2024-01-15", "title": "Invasions eliminate the legacy effects of substrate history on microbial nitrogen cycling", "description": "AbstractChanges in substrate quality driven by climate, land use, or other forms of global change may represent a strong selective force on microbial communities. Invasion of new taxa into a community through dispersal, evolution, or recolonization could impact the outcome of this environmental selection. Here, we simulated substrate change with a trait\uffe2\uff80\uff90based model of microbial litter decomposition (DEMENTpy) to assess the legacy effects of past substrate quality and the impact of selection by a new substrate on community decomposition activity. Simulations were run with different levels of invasion, including invasion from communities long\uffe2\uff80\uff90adapted to the new substrate. Legacy effects were evident with substrate change for native communities differing in composition. Protein was the only substrate that exerted a strong enough selective force to affect community composition. Legacy effects disappeared when invaders came from substrates similar to the new substrate. Together, our simulations demonstrate that substrate quality changes associated with global change can lead to legacy effects on substrate degradation. In decomposing plant litter, such legacy effects can occur if substrate inputs shift to higher protein content and if invasion is low.The ecological drivers of soil biodiversity in the Southern Hemisphere remain underexplored. Here, in a continental survey comprising 647 sites, across 58 degrees of latitude between tropical Australia and Antarctica, we evaluated the major ecological patterns in soil biodiversity and relative abundance of ecological clusters within a co\uffe2\uff80\uff90occurrence network of soil bacteria, archaea and eukaryotes. Six major ecological clusters (modules) of co\uffe2\uff80\uff90occurring soil taxa were identified. These clusters exhibited strong shifts in their relative abundances with increasing distance from the equator. Temperature was the major environmental driver of the relative abundance of ecological clusters when Australia and Antarctica are analyzed together. Temperature, aridity, soil properties and vegetation types were the major drivers of the relative abundance of different ecological clusters within Australia. Our data supports significant reductions in the diversity of bacteria, archaea and eukaryotes in Antarctica vs. Australia linked to strong reductions in temperature. However, we only detected small latitudinal variations in soil biodiversity within Australia. Different environmental drivers regulate the diversity of soil archaea (temperature and soil carbon), bacteria (aridity, vegetation attributes and pH) and eukaryotes (vegetation type and soil carbon) across Australia. Together, our findings provide new insights into the mechanisms driving soil biodiversity in the Southern Hemisphere.The pedogenesis from the mineral substrate released upon glacier melting has been explained with the succession of consortia of pioneer microorganisms, whose structure and functionality are determined by the environmental conditions developing in the moraine. However, the microbiome variability that can be expected in the environmentally heterogeneous niches occurring in a moraine at a given successional stage is poorly investigated. In a 50\uffe2\uff80\uff89m2 area in the forefield of the Lobuche glacier (Himalayas, 5050\uffe2\uff80\uff89m above sea level), we studied six sites of primary colonization presenting different topographical features (orientation, elevation and slope) and harbouring greyish/dark biological soil crusts (BSCs). The spatial vicinity of the sites opposed to their topographical differences, allowed us to examine the effect of environmental conditions independently from the time of deglaciation. The bacterial microbiome diversity and their co\uffe2\uff80\uff90occurrence network, the bacterial metabolisms predicted from 16S rRNA gene high\uffe2\uff80\uff90throughput sequencing, and the microbiome intact polar lipids were investigated in the BSCs and the underlying sediment deep layers (DLs). Different bacterial microbiomes inhabited the BSCs and the DLs, and their composition varied among sites, indicating a niche\uffe2\uff80\uff90specific role of the micro\uffe2\uff80\uff90environmental conditions in the bacterial communities' assembly. In the heterogeneous sediments of glacier moraines, physico\uffe2\uff80\uff90chemical and micro\uffe2\uff80\uff90climatic variations at the site\uffe2\uff80\uff90spatial scale are crucial in shaping the microbiome microvariability and structuring the pioneer bacterial communities during pedogenesis.
", "keywords": ["0301 basic medicine", "Pedogenesis", "0303 health sciences", "Glacier Foreland Succession", "Bacteria", "Biological soil crust", "15. Life on land", "Primary Colonization", "Soil", "03 medical and health sciences", "13. Climate action", "RNA", " Ribosomal", " 16S", "Glacier Moraines", "Cold Deserts", "Pioneer Bacterial Communities", "Ice Cover", "Soil moisture", "Research Articles", "Soil Microbiology"]}, "links": [{"href": "https://air.unimi.it/bitstream/2434/949070/2/Rolli%20et%20al%202022%20Environmental%20micro%e2%80%90niche%20filtering%20shapes%20bacterial%20pioneer%20communities.pdf"}, {"href": "https://eprints.ncl.ac.uk/fulltext.aspx?url=302678/40A25368-9064-4886-B8E6-E7942511FA71.pdf&pub_id=302678"}, {"href": "https://doi.org/10.1111/1462-2920.16268"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Microbiology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/1462-2920.16268", "name": "item", "description": "10.1111/1462-2920.16268", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/1462-2920.16268"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-11-18T00:00:00Z"}}, {"id": "10.1016/j.scitotenv.2006.08.032", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:17:20Z", "type": "Journal Article", "created": "2006-09-27", "title": "Seasonal Variations In Decomposition Processes In A Valley-Bottom Riparian Peatland", "description": "A year-long field survey was carried out at a valley-bottom riparian peatland site in North Wales, UK from January 2002 to December 2002 to examine the seasonal variation of decomposition processes and dissolved organic carbon (DOC) concentrations. Peat temperature, physicochemistry, organic carbon pools, basal CO(2) respiration and extracellular enzyme activities (beta-glucosidase, phosphatase, sulphatase and phenol oxidase) were monitored monthly. The results of a principle component eigenanalysis of field data show that concentrations of basal CO(2) respiration, soil solution DOC and phenolics were positively correlated to soil temperature (P<0.01, F=12.25; P<0.001, F=59.8; P<0.001, F=141.27) with Q(10) responses of 2.29, 6.42 and 14.42, respectively. Extracellular enzyme activities, however, were more strongly associated with seasonal changes in ion concentrations and did not correspond significantly to temperature alone suggesting limitations attributable to a combination of continuous anaerobiosis and/or the suppressive compounds. Restraints on soil enzyme activities may limit the loss of CO(2) from the microbial community that is dependent on soil enzyme activities for nutrient availability. The seasonal effect of temperature on DOC may be explained by increased plant rhizodeposition and microbial activity. These results do not imply that the long-term increasing trend in DOC export is explainable by temperature increase but suggest that temperature may be a key factor regulating the seasonal variation in DOC concentrations. Thus, seasonal temperature effects on DOC may represent an important component of long-term models of DOC export.", "keywords": ["Wales", "phenolics", "Climate", "beta-Glucosidase", "Temperature", "04 agricultural and veterinary sciences", "DOC", "Carbon Dioxide", "Hydrogen-Ion Concentration", "15. Life on land", "01 natural sciences", "Carbon", "Phosphoric Monoester Hydrolases", "Soil", "Phenols", "13. Climate action", "basal respiration", "0401 agriculture", " forestry", " and fisheries", "peatland", "Seasons", "Sulfatases", "soil enzymes", "Soil Microbiology", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1016/j.scitotenv.2006.08.032"}, {"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": "10.1016/j.scitotenv.2006.08.032", "name": "item", "description": "10.1016/j.scitotenv.2006.08.032", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.scitotenv.2006.08.032"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2006-11-01T00:00:00Z"}}, {"id": "10.1007/s00248-009-9508-x", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:14:56Z", "type": "Journal Article", "created": "2009-03-30", "title": "Comparative Resistance And Resilience Of Soil Microbial Communities And Enzyme Activities In Adjacent Native Forest And Agricultural Soils", "description": "Degradation of soil properties following deforestation and long-term soil cultivation may lead to decreases in soil microbial diversity and functional stability. In this study, we investigated the differences in the stability (resistance and resilience) of microbial community composition and enzyme activities in adjacent soils under either native tropical forest (FST) or in agricultural cropping use for 14 years (AGR). Mineral soil samples (0 to 5 cm) from both areas were incubated at 40 degrees C, 50 degrees C, 60 degrees C, or 70 degrees C for 15 min in order to successively reduce the microbial biomass. Three and 30 days after the heat shocks, fluorescein diacetate (FDA) hydrolysis, cellulase and laccase activities, and phospholipid-derived fatty acids-based microbial community composition were measured. Microbial biomass was reduced up to 25% in both soils 3 days after the heat shocks. The higher initial values of microbial biomass, enzyme activity, total and particulate soil organic carbon, and aggregate stability in the FST soil coincided with higher enzymatic stability after heat shocks. FDA hydrolysis activity was less affected (more resistance) and cellulase and laccase activities recovered more rapidly (more resilience) in the FST soil relative to the AGR counterpart. In the AGR soil, laccase activity did not show resilience to any heat shock level up to 30 days after the disturbance. Within each soil type, the microbial community composition did not differ between heat shock and control samples at day 3. However, at day 30, FST soil samples treated at 60 degrees C and 70 degrees C contained a microbial community significantly different from the control and with lower biomass regardless of high enzyme resilience. Results of this study show that deforestation followed by long-term cultivation changed microbial community composition and had differential effects on microbial functional stability. Both soils displayed similar resilience to FDA hydrolysis, a composite measure of a broad range of hydrolases, supporting the concept of high functional redundancy in soil microbial communities. In contrast, the resilience of the substrate-specific activities of laccase and cellulase were lower in AGR soils, indicating a less diverse community of microorganisms capable of producing these enzymes and confirming that specific microbial functions are more sensitive measurements for evaluating change in the ecological stability of soils.", "keywords": ["2. Zero hunger", "Hot Temperature", "Laccase", "Agriculture", "04 agricultural and veterinary sciences", "15. Life on land", "Fluoresceins", "6. Clean water", "Trees", "Soil", "Cellulase", "Enzyme Stability", "0401 agriculture", " forestry", " and fisheries", "Biomass", "Brazil", "Ecosystem", "Soil Microbiology"]}, "links": [{"href": "https://doi.org/10.1007/s00248-009-9508-x"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microbial%20Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00248-009-9508-x", "name": "item", "description": "10.1007/s00248-009-9508-x", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00248-009-9508-x"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2009-03-31T00:00:00Z"}}, {"id": "10.1016/j.scitotenv.2007.07.015", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:17:20Z", "type": "Journal Article", "created": "2007-09-06", "title": "The Effects Of Copper Oxy Chloride Waste Contamination On Selected Soil Biochemical Properties At Disposal Site", "description": "A study was carried out at a sanitary waste disposal site for Kutsaga Tobacco Research Station, Zimbabwe, which uses large amounts of copper oxy chloride for sterilization of recycled float trays in flooded bench tobacco seedling production systems. Soil samples randomly collected from six stream bank zones (bands up the valley slope) varying in their distance ranges from the centre of both the wastewater-free and wastewater-affected paths [0-5 m (B1); 6-10 m (B2); 11-15 m (B3); 16-20 m (B4); 21-25 m (B5) and 26-30 m (B6)] in two sample depths (0-15; 15-30 cm) were analysed for metal copper, organic matter contents, and soil pH and subjected to agarized incubation for microbial counts. Results suggest that the repeated disposals of copper oxy chloride waste from tobacco float tray sanitation sinks into a creek amplify metal copper loads in the soil by 500 fold. The greatest concentrations of copper in both the topsoil and upper subsoil were recorded in the B3, B4 and B5 stream bank zones of the wastewater path. The concentration of copper was significantly lower in the middle of the waste-affected creek than that in the stream bank zones. This trend in the copper concentration coincided with the lowest acidity of the soil. Overloading the soil with copper, surprisingly, enhances the content of soil organic matter. The repeated release of copper oxy chloride waste into a stream causes an accelerated build-up of metal copper and soil acidity in the stream bank on-site while contamination is translocated to either underground water reserve or surface stream water flow in the middle of the wastewater path.", "keywords": ["Nicotiana", "Zimbabwe", "Industrial Waste", "04 agricultural and veterinary sciences", "15. Life on land", "01 natural sciences", "6. Clean water", "Refuse Disposal", "12. Responsible consumption", "Soil Pollutants", "0401 agriculture", " forestry", " and fisheries", "Copper", "Soil Microbiology", "Water Pollutants", " Chemical", "Disinfectants", "Environmental Monitoring", "0105 earth and related environmental sciences"], "contacts": [{"organization": "Johnson Masaka, M. Muunganirwa,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1016/j.scitotenv.2007.07.015"}, {"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": "10.1016/j.scitotenv.2007.07.015", "name": "item", "description": "10.1016/j.scitotenv.2007.07.015", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.scitotenv.2007.07.015"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2007-11-15T00:00:00Z"}}, {"id": "10.1002/jsfa.4533", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:14:40Z", "type": "Journal Article", "created": "2011-07-27", "title": "Influence Of Fertilisation Regimes On A Nosz-Containing Denitrifying Community In A Rice Paddy Soil", "description": "AbstractBACKGROUND: Denitrification is a microbial process that has received considerable attention during the past decade since it can result in losses of added nitrogen fertilisers from agricultural soils. Paddy soil has been known to have strong denitrifying activity, but the denitrifying microorganisms responsible for fertilisers in paddy soil are not well known. The objective of this study was to explore the impacts of 17\uffe2\uff80\uff90year application of inorganic and organic fertiliser (rice straw) on the abundance and composition of a nosZ\uffe2\uff80\uff90denitrifier community in paddy soil. Soil samples were collected from CK plots (no fertiliser), N (nitrogen fertiliser), NPK (nitrogen, phosphorus and potassium fertilisers) and NPK + OM (NPK plus organic matter). The nitrous oxide reductase gene (nosZ) community composition was analysed using terminal restriction fragment length polymorphism, and the abundance was determined by quantitative PCR.
RESULTS: Both the largest abundance of nosZ\uffe2\uff80\uff90denitrifier and the highest potential denitrifying activity (PDA) occurred in the NPK + OM treatment with about four times higher than that in the CK and two times higher than that in the N and NPK treatments (no significant difference). Denitrifying community composition differed significantly among fertilisation treatments except for the comparison between CK and N treatments. Of the measured abiotic factors, total organic carbon was significantly correlated with the observed differences in community composition and abundance (P < 0.01 by Monte Carlo permutation).
CONCLUSION: This study shows that the addition of different fertilisers affects the size and composition of the nosZ\uffe2\uff80\uff90denitrifier community in paddy soil. Copyright \uffc2\uffa9 2011 Society of Chemical Industry
", "keywords": ["2. Zero hunger", "0301 basic medicine", "0303 health sciences", "Bacteria", "Nitrogen", "0402 animal and dairy science", "Agriculture", "Oryza", "04 agricultural and veterinary sciences", "15. Life on land", "6. Clean water", "Carbon", "Soil", "03 medical and health sciences", "Genes", " Bacterial", "Denitrification", "0405 other agricultural sciences", "Fertilizers", "Oxidoreductases", "Monte Carlo Method", "Polymorphism", " Restriction Fragment Length", "Soil Microbiology"]}, "links": [{"href": "https://doi.org/10.1002/jsfa.4533"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20the%20Science%20of%20Food%20and%20Agriculture", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1002/jsfa.4533", "name": "item", "description": "10.1002/jsfa.4533", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1002/jsfa.4533"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2011-07-27T00:00:00Z"}}, {"id": "10.1002/jsfa.4645", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:14:40Z", "type": "Journal Article", "created": "2011-10-12", "title": "Restricted Mineralization Of Fresh Organic Materials Incorporated Into A Subtropical Paddy Soil", "description": "AbstractBACKGROUND: Microbial activities involved in the dynamics of organic matter determine the potential for organic carbon (C) accumulation in soil. To understand this for paddy soil, an incubation experiment (25 \uffc2\uffb0C, 45% water\uffe2\uff80\uff90holding capacity) was established using 14C\uffe2\uff80\uff90labelled glucose and rice straw (500 \uffc2\uffb5g C g\uffe2\uff88\uff921 soil) as substrates; an adjacent upland soil was used for comparison.
RESULTS: The amount of microbial biomass in the paddy soil was approximately 6 times larger and its turnover rate was 1.5\uffe2\uff80\uff933 times faster than in the upland soil. These proportions of 14C\uffe2\uff80\uff90labelled glucose and rice straw mineralized in the paddy soil were about 3% smaller (P < 0.01) than those in the upland soil. Also, there was no significant priming effect of fresh substrate additions on the mineralization of native organic C in the paddy soil, while the priming effect was significant in the upland soil.
CONCLUSION: Although the paddy soil contains a large amount of microbial biomass, which is also very active, the mineralization of fresh substrates is significantly restricted in this soil, along with a small priming effect. This favours the accumulation of organic C in paddy soils. Copyright \uffc2\uffa9 2011 Society of Chemical Industry
", "keywords": ["2. Zero hunger", "Minerals", "Tropical Climate", "Agriculture", "Oryza", "04 agricultural and veterinary sciences", "15. Life on land", "Carbon", "Carbon Cycle", "Soil", "Glucose", "0401 agriculture", " forestry", " and fisheries", "Biomass", "Ecosystem", "Soil Microbiology"], "contacts": [{"organization": "Ping Zhou, John Keith Syers, Hongzhao Yuan, Yirong Su, Ling Li, Jinshui Wu,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1002/jsfa.4645"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20the%20Science%20of%20Food%20and%20Agriculture", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1002/jsfa.4645", "name": "item", "description": "10.1002/jsfa.4645", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1002/jsfa.4645"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2011-10-12T00:00:00Z"}}, {"id": "10.1002/jsfa.4647", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:14:40Z", "type": "Journal Article", "created": "2011-09-27", "title": "Response Of Soil Organic Carbon Mineralization In Typical Karst Soils Following The Addition Of 14c-Labeled Rice Straw And Caco3", "description": "AbstractBACKGROUND: Organic substrates and calcium are important factors controlling organic matter turnover in Karst soils. To understand their effects on soil organic carbon (SOC) mineralization, an incubation experiment was conducted involving a control treatment (CK), the addition of a 14C\uffe2\uff80\uff90labeled rice straw (T1), CaCO3 (T2), and both 14C\uffe2\uff80\uff90labeled rice straw and CaCO3 (T3) to two types of Karst soils (terra fusca and rendzina) and a red soil from southwestern China.
RESULTS: Cumulative mineralization of the rice straw over 100 days in rendzina (22.96 mg kg\uffe2\uff88\uff921) and terra fusca (23.19 mg kg\uffe2\uff88\uff921) was higher than in the red soil (15.48 mg kg\uffe2\uff88\uff921; P < 0.05). Cumulative mineralization of native SOC decreased following addition of 14C\uffe2\uff80\uff90labeled rice straw in the rendzina and terra fusca but increased in the red soil (negative and positive priming effects on native SOC). The turnover times of 14C\uffe2\uff80\uff90labeled microbial biomass C (MBC) in the red soil, terra fusca and rendzina were 71 \uffc2\uffb1 2, 243 \uffc2\uffb1 20 and 254 \uffc2\uffb1 45 days, respectively. By adding CaCO3, the accumulation of SOC was greater in the Karst soils than in the red soil.
CONCLUSION: Although the interactions between rice straw decomposition and priming effects on native SOC are not yet understood, there was considerable variation between Karst and red soils. Soil calcium was a positive factor in maintaining SOC stability. MBC from rice straws was stable in terra fusca and rendzina, whereas it was active in the red soil. The Karst soils (terra fusca and rendzina) used in this study benefited SOC accumulation. Copyright \uffc2\uffa9 2011 Society of Chemical Industry
", "keywords": ["2. Zero hunger", "Carbon Isotopes", "Soil", "0401 agriculture", " forestry", " and fisheries", "Calcium", "Oryza", "04 agricultural and veterinary sciences", "15. Life on land", "Carbon", "Soil Microbiology", "6. Clean water", "Calcium Carbonate", "Carbon Cycle"]}, "links": [{"href": "https://doi.org/10.1002/jsfa.4647"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20the%20Science%20of%20Food%20and%20Agriculture", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1002/jsfa.4647", "name": "item", "description": "10.1002/jsfa.4647", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1002/jsfa.4647"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2011-09-23T00:00:00Z"}}, {"id": "10.1002/jsfa.5550", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:14:40Z", "type": "Journal Article", "created": "2012-01-06", "title": "The Effect Of Rice Straw Incorporation Into Paddy Soil On Carbon Sequestration And Emissions In The Double Cropping Rice System", "description": "AbstractBACKGROUND: Soil organic carbon (SOC) sequestration, methane emission, and the net carbon sink represented by rice straw incorporated into soil (RIS) were studied using long\uffe2\uff80\uff90term experimentation with rice straw incorporated into soil (LRIS) and short\uffe2\uff80\uff90term experimentation with different patterns of rice straw incorporated into soil (SPRIS).
RESULTS: Soil organic carbon could be improved by RIS combined with soil ploughing. The increased rate of SOC deposition per cultivated layer was 0.10 t C ha\uffe2\uff88\uff921 for 2.625 t ha\uffe2\uff88\uff921 straw incorporated each season in LRIS and 0.36 t C ha\uffe2\uff88\uff921 for 4.5 t straw ha\uffe2\uff88\uff921 season\uffe2\uff88\uff921 incorporated in SPRIS; the apparent SOC conversion by rice straw (stubble) was reduced as the amount of incorporated straw increased. However, RIS methane emission from paddy fields also significantly exacerbated the CH4 emission flux observed during the early and late rice growing seasons, which was increased by 75.0% (P < 0.01) and 251.5% (P < 0.01), respectively, compared with combined application of nitrogen, phosphorus and potassium fertiliser (NPK). The apparent methane conversion of straw was almost uniform with a similar rice yield and soil cultivating mode. Among the patterns of RIS, methane emission was significantly reduced under straw covering untilled land, and this property led to the lowest apparent methane conversion.
CONCLUSION: RIS with ploughing and tilling resulted in negative carbon sequestration because of increased methane emissions. A combined NPK application with only rice stubble incorporation may be sustainable for a higher rice yield, but this approach has a reduced rate of negative carbon sequestration in the paddy field. Straw covering with no tillage was the best measure to realise high yield and low carbon emission for RIS. Copyright \uffc2\uffa9 2012 Society of Chemical Industry
", "keywords": ["2. Zero hunger", "Agriculture", "Oryza", "04 agricultural and veterinary sciences", "15. Life on land", "Carbon", "6. Clean water", "Soil", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "Biomass", "Fertilizers", "Methane", "Soil Microbiology"]}, "links": [{"href": "https://doi.org/10.1002/jsfa.5550"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20the%20Science%20of%20Food%20and%20Agriculture", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1002/jsfa.5550", "name": "item", "description": "10.1002/jsfa.5550", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1002/jsfa.5550"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2012-01-06T00:00:00Z"}}, {"id": "10.1002/jsfa.6206", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:14:40Z", "type": "Journal Article", "created": "2013-05-01", "title": "Effect Of Organic, Conventional And Mixed Cultivation Practices On Soil Microbial Community Structure And Nematode Abundance In A Cultivated Onion Crop", "description": "AbstractBACKGROUNDResponses of the soil microbial and nematode community to organic and conventional agricultural practices were studied using the Teagasc Kinsealy Systems Comparison trial as the experimental system. The trial is a long\uffe2\uff80\uff90term field experiment which divides conventional and organic agriculture into component pest\uffe2\uff80\uff90control and soil treatment practices. We hypothesised that management practices would affect soil ecology and used community level physiological profiles, microbial and nematode counts, and denaturing gradient gel electrophoresis (DGGE) to characterise soil microbial communities in plots used for onion (Allium cepa L.) cultivation.
RESULTSMicrobial activity and culturable bacterial counts were significantly higher under fully organic management. Culturable fungi, actinomycete and nematode counts showed a consistent trend towards higher numbers under fully organic management but these data were not statistically significant. No differences were found in the fungal/bacterial ratio. DGGE banding patterns and sequencing of excised bands showed clear differences between treatments. Putative onion fungal pathogens were predominantly sequenced under conventional soil treatment practices whilst putative soil suppressive bacterial species were predominantly sequenced from the organic pest\uffe2\uff80\uff90control treatment plots.
CONCLUSIONOrganic management increased microbial activity and diversity. Sequence data was indicative of differences in functional groups and warrants further investigation. \uffc2\uffa9 2013 Society of Chemical Industry
", "keywords": ["DNA", " Bacterial", "0301 basic medicine", "Microbial diversity", "Nematoda", "Soil", "03 medical and health sciences", "Onions", "Animals", "DNA", " Fungal", "Ecosystem", "Soil Microbiology", "2. Zero hunger", "Organic Agriculture", "0303 health sciences", "Bacteria", "Denaturing Gradient Gel Electrophoresis", "0402 animal and dairy science", "Fungi", "Denaturing gradient gel electrophoresis", "Agriculture", "Biolog Eco-plates", "04 agricultural and veterinary sciences", "15. Life on land", "Community level physiological profile", "Organic agriculture", "0405 other agricultural sciences"]}, "links": [{"href": "https://doi.org/10.1002/jsfa.6206"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20the%20Science%20of%20Food%20and%20Agriculture", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1002/jsfa.6206", "name": "item", "description": "10.1002/jsfa.6206", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1002/jsfa.6206"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-06-07T00:00:00Z"}}, {"id": "10.1002/jsfa.8606", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:14:40Z", "type": "Journal Article", "created": "2017-07-31", "title": "How Are Arbuscular Mycorrhizal Associations Related To Maize Growth Performance During Short-Term Cover Crop Rotation?", "description": "AbstractBACKGROUNDBetter cover crop management options aiming to maximize the benefits of arbuscular mycorrhizal fungi (AMF) to subsequent crops are largely unknown. We investigated the impact of cover crop management methods on maize growth performance and assemblages of AMF colonizing maize roots in a field trial. The cover crop treatments comprised Italian ryegrass, wheat, brown mustard and fallow in rotation with maize.
RESULTSThe diversity of AMF communities among cover crops used for maize management was significantly influenced by the cover crop and time course. Cover crops did not affect grain yield and aboveground biomass of subsequent maize but affected early growth. A structural equation model indicated that the root colonization, AMF diversity and maize phosphorus uptake had direct strong positive effects on yield performance.
CONCLUSIONAMF variables and maize performance were related directly or indirectly to maize grain yield, whereas root colonization had a positive effect on maize performance. AMF may be an essential factor that determines the success of cover crop rotational systems. Encouraging AMF associations can potentially benefit cover cropping systems. Therefore, it is imperative to consider AMF associations and crop phenology when making management decisions. \uffc2\uffa9 2017 Society of Chemical Industry
", "keywords": ["2. Zero hunger", "0301 basic medicine", "0303 health sciences", "0402 animal and dairy science", "Agriculture", "Phosphorus", "04 agricultural and veterinary sciences", "15. Life on land", "Plant Roots", "Zea mays", "Crop Production", "03 medical and health sciences", "Mycorrhizae", "Lolium", "0405 other agricultural sciences", "Soil Microbiology", "Triticum", "Mustard Plant"]}, "links": [{"href": "https://doi.org/10.1002/jsfa.8606"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20the%20Science%20of%20Food%20and%20Agriculture", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1002/jsfa.8606", "name": "item", "description": "10.1002/jsfa.8606", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1002/jsfa.8606"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-09-11T00:00:00Z"}}, {"id": "10.1007/s00442-007-0836-6", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:15:06Z", "type": "Journal Article", "created": "2007-08-27", "title": "Microbial Responses To Nitrogen Addition In Three Contrasting Grassland Ecosystems", "description": "The effects of global N enrichment on soil processes in grassland ecosystems have received relatively little study. We assessed microbial community response to experimental increases in N availability by measuring extracellular enzyme activity (EEA) in soils from three grasslands with contrasting edaphic and climatic characteristics: a semiarid grassland at the Sevilleta National Wildlife Refuge, New Mexico, USA (SEV), and mesic grasslands at Konza Prairie, Kansas, USA (KNZ) and Ukulinga Research Farm, KwaZulu-Natal, South Africa (SAF). We hypothesized that, with N enrichment, soil microbial communities would increase C and P acquisition activity, decrease N acquisition activity, and reduce oxidative enzyme production (leading to recalcitrant soil organic matter [SOM] accumulation), and that the magnitude of response would decrease with soil age (due to higher stabilization of enzyme pools and P limitation of response). Cellulolytic activities followed the pattern predicted, increasing 35-52% in the youngest soil (SEV), 10-14% in the intermediate soil (KNZ) and remaining constant in the oldest soil (SAF). The magnitude of phosphatase response did not vary among sites. N acquisition activity response was driven by the enzyme closest to its pH optimum in each soil: i.e., leucine aminopeptidase in alkaline soil, beta-N-acetylglucosaminidase in acidic soil. Oxidative enzyme activity varied widely across ecosystems, but did not decrease with N amendment at any site. Likewise, SOM and %C pools did not respond to N enrichment. Between-site variation in both soil properties and EEA exceeded any treatment response, and a large portion of EEA variability (leucine aminopeptidase and oxidative enzymes), 68% as shown by principal components analysis, was strongly related to soil pH (r = 0.91, P < 0.001). In these grassland ecosystems, soil microbial responses appear constrained by a molecular-scale (pH) edaphic factor, making potential breakdown rates of SOM resistant to N enrichment.", "keywords": ["2. Zero hunger", "0106 biological sciences", "Analysis of Variance", "Bacteria", "Nitrogen", "New Mexico", "04 agricultural and veterinary sciences", "Kansas", "15. Life on land", "Poaceae", "01 natural sciences", "Carbon", "Enzymes", "Soil", "South Africa", "0401 agriculture", " forestry", " and fisheries", "Biomass", "Ecosystem", "Soil Microbiology"]}, "links": [{"href": "https://doi.org/10.1007/s00442-007-0836-6"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Oecologia", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00442-007-0836-6", "name": "item", "description": "10.1007/s00442-007-0836-6", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00442-007-0836-6"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2007-08-28T00:00:00Z"}}, {"id": "10.1002/ps.3380", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:14:43Z", "type": "Journal Article", "created": "2012-06-20", "title": "Reproduction Allocation And Potential Mechanism Of Individual Allelopathic Rice Plants In The Presence Of Competing Barnyardgrass", "description": "AbstractBACKGROUND: In spite of increasing knowledge of allelopathic rice as an efficient component involved in paddy weed management, relatively little is known about its reproduction in response to competing weeds. Reproduction allocation of individual allelopathic rice plants in relation to monoculture and mixed culture with competing barnyardgrass in a paddy field was studied, along with analyses of soil nutrients and microbial communities to understand the potential mechanism.
RESULTS: At a 1:1 barnyardgrass and rice mixture proportion identified from a replacement series study, biomass, grain yield and major parameters of individual allelopathic rice plants at the mature stage were increased by competing barnyardgrass. There was no difference in allelopathic rice root\uffe2\uff80\uff90zone soil ammonium N and Olsen P between monoculture and mixed culture. However, mixed culture altered soil microbial biomass C and communities. When mixed with barnyardgrass, allelopathic rice root zone had an 87% increase in soil microbial biomass C. Phospholipid fatty acid (PLFA) profiling indicated that the signature lipid biomarkers of bacteria, actinobacteria and fungi were affected by mixed culture. Principal component analysis clearly identified differences in the composition of PLFA in different soil samples.
CONCLUSION: Allelopathic rice specific changes in soil microbial communities may generate a positive feedback on its own growth and reproduction in the presence of competing barnyardgrass in a given paddy system. Copyright \uffc2\uffa9 2012 Society of Chemical Industry
", "keywords": ["2. Zero hunger", "0106 biological sciences", "China", "Reproduction", "Population Dynamics", "Oryza", "04 agricultural and veterinary sciences", "15. Life on land", "01 natural sciences", "Pheromones", "Soil", "Echinochloa", "Rhizosphere", "0401 agriculture", " forestry", " and fisheries", "Biomass", "Soil Microbiology"], "contacts": [{"organization": "Chui-Hua Kong, Peng Wang, Xiang-Rui Meng, Hanwen Ni, Ming-Li Wang,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1002/ps.3380"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Pest%20Management%20Science", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1002/ps.3380", "name": "item", "description": "10.1002/ps.3380", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1002/ps.3380"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2012-08-07T00:00:00Z"}}, {"id": "10.1002/ps.7961", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:14:43Z", "type": "Journal Article", "created": "2024-01-20", "title": "The effect of natural products used as pesticides on the soil microbiota: OECD 216 nitrogen transformation test fails to identify effects that were detected viaq\u2010PCR microbial abundance measurement", "description": "AbstractBACKGROUNDNatural products present an environmentally attractive alternative to synthetic pesticides which have been implicated in the off\uffe2\uff80\uff90target effect. Currently, the assessment of pesticide toxicity on soil microorganisms relies on the OECD 216 N transformation assay (OECD stands for the Organisation Economic Co\uffe2\uff80\uff90operation and Development, which is a key international standard\uffe2\uff80\uff90setting organisation). We tested the hypotheses that (i) the OECD 216 assay fails to identify unacceptable effects of pesticides on soil microbiota compared to more advanced molecular and standardized tests, and (ii) the natural products tested (dihydrochalcone, isoflavone, aliphatic phenol, and spinosad) are less toxic to soil microbiota compared to a synthetic pesticide compound (3,5\uffe2\uff80\uff90dichloraniline). We determined the following in three different soils: (i) ammonium (NH4+) and nitrate (NO3\uffe2\uff88\uff92) soil concentrations, as dictated by the OECD 216 test, and (ii) the abundance of phylogenetically (bacteria and fungi) and functionally distinct microbial groups [ammonia\uffe2\uff80\uff90oxidizing archaea (AOA) and bacteria (AOB)] using quantitative polymerase chain reaction (q\uffe2\uff80\uff90PCR).
RESULTSAll pesticides tested exhibited limited persistence, with spinosad demonstrating the highest persistence. None of the pesticides tested showed clear dose\uffe2\uff80\uff90dependent effects on NH4+ and NO3\uffe2\uff88\uff92 levels and the observed effects were <25% of the control, suggesting no unacceptable impacts on soil microorganisms. In contrast, q\uffe2\uff80\uff90PCR measurements revealed (i) distinct negative effects on the abundance of total bacteria and fungi, which were though limited to one of the studied soils, and (ii) a significant reduction in the abundance of both AOA and AOB across soils. This reduction was attributed to both natural products and 3,5\uffe2\uff80\uff90dichloraniline.
CONCLUSIONOur findings strongly advocate for a revision of the current regulatory framework regarding the toxicity of pesticides to soil microbiota, which should integrate advanced and well\uffe2\uff80\uff90standardized tools. \uffc2\uffa9 2024 The Authors. Pest Management Science published by John Wiley & Sons Ltd on behalf of Society of Chemical Industry.