{"type": "FeatureCollection", "features": [{"id": "10.1111/j.1365-2486.2010.02196.x", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:19:36Z", "type": "Journal Article", "created": "2010-02-05", "title": "Nitrogen Deposition, Vegetation Burning And Climate Warming Act Independently On Microbial Community Structure And Enzyme Activity Associated With Decomposing Litter In Low-Alpine Heath", "description": "Abstract<p>Low\uffe2\uff80\uff90alpine heathlands are thought to be particularly sensitive to nitrogen (N) deposition, climate and land management change, yet little is known about how these factors regulate key belowground processes, like litter turnover, under field conditions. Here we use an in situ factorial field experiment to test the effects of increased atmospheric N deposition, climate manipulation and past vegetation burning, and their interactions, on litter decomposition and the activity and diversity of associated microorganisms. The use of litter from within (native) and outwith (standard) the experimental plots also enabled us to test whether decomposition and microbial functional diversity is driven primarily by soil conditions or litter chemistry. In general, extracellular enzyme activities of litter were driven by additions of simulated N deposition with phosphatase being the most responsive. We found that standard litter incubated in plots that had been burnt 8 years previously decomposed slower and lost less N and phosphorus than in unburnt plots. This material also had associated with it the greatest activity of glucosidase and the least diverse microbial community, as assessed by culture\uffe2\uff80\uff90independent methods. Although all treatments significantly affected microbial diversity, burning explained most of the variability, indicating a close coupling between plant and microbial communities in these treatments. A striking feature of all the data relating to both standard and native litter was an almost complete lack of interactive effects between the treatments. The lack of interactions between the treatments indicates that each perturbation might affect different mechanisms in the decomposition process (including the composition of associated microbial communities) and nutrient cycling.</p>", "keywords": ["climate change", "enzyme activities", "soil microorganisms", "soil bacteria", "13. Climate action", "microbial diversity", "soil fungi", "0401 agriculture", " forestry", " and fisheries", "04 agricultural and veterinary sciences", "carbon turnover", "15. Life on land"]}, "links": [{"href": "https://doi.org/10.1111/j.1365-2486.2010.02196.x"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Global%20Change%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/j.1365-2486.2010.02196.x", "name": "item", "description": "10.1111/j.1365-2486.2010.02196.x", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/j.1365-2486.2010.02196.x"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2010-02-05T00:00:00Z"}}, {"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": "AbstractBACKGROUND<p>Responses 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.</p>RESULTS<p>Microbial 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.</p>CONCLUSION<p>Organic 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</p>", "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": "10.1007/s00374-011-0539-3", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:15:01Z", "type": "Journal Article", "created": "2011-01-18", "title": "Effects Of Organic And Inorganic Fertilization On Soil Bacterial And Fungal Microbial Diversity In The Kabete Long-Term Trial, Kenya", "description": "The effects of crop manure and inorganic fertilizers on composition of microbial communities of central high land soils of Kenya are poorly known. For this reason, we have carried out a thirty-two-year-old long-term trial in Kabete, Kenya. These soils were treated with organic (maize stover (MS) at 10 t ha\u22121, farmyard manure (FYM) at 10 t ha\u22121) and inorganic fertilizers 120 kg N, 52.8 kg P (N2P2), N2P2 + MS, N2P2 + FYM, a control, and a fallow for over 30 years. We examined 16S rRNA gene and 28S rRNA gene fingerprints of bacterial and fungal diversity by PCR amplification and denaturing gradient gel electrophoresis separation, respectively. The PCR bacterial community structure and diversity were negatively affected by N2P2 and were more closely related to the bacterial structure in the soils without any addition (control) than that of soils with a combination of inorganic and organic or inorganic fertilizers alone. The effect on fungal diversity by N2P2 was different than the effect on bacterial diversity since the fungal diversity was similar to that of the N2P2 + FYM and N2P2 + MS-treated. However, soils treated with organic inputs clustered away from soils amended with inorganic inputs. Organic inputs had a positive effect on both bacterial and fungal diversity with or without chemical fertilizers. Results from this study suggested that total diversity of bacterial and fungal communities was closely related to agro-ecosystem management practices and may partially explain the yield differences observed between the different treatments.", "keywords": ["[SDV.SA]Life Sciences [q-bio]/Agricultural sciences", "Microbial diversity", "soil microorganisms", "engrais organique", "http://aims.fao.org/aos/agrovoc/c_27870", "Organic and inorganic amendments", "F08 - Syst\u00e8mes et modes de culture", "rendement des cultures", "630", "fertilisation", "biodiversit\u00e9", "http://aims.fao.org/aos/agrovoc/c_4592", "http://aims.fao.org/aos/agrovoc/c_36669", "http://aims.fao.org/aos/agrovoc/c_2018", "inorganic fertilizers", "http://aims.fao.org/aos/agrovoc/c_10795", "http://aims.fao.org/aos/agrovoc/c_34326", "fertility", "2. Zero hunger", "[SDV.SA] Life Sciences [q-bio]/Agricultural sciences", "http://aims.fao.org/aos/agrovoc/c_33949", "g\u00e9n\u00e9tique des populations", "04 agricultural and veterinary sciences", "agro\u00e9cosyst\u00e8me", "6. Clean water", "fertilit\u00e9 du sol", "PCR", "http://aims.fao.org/aos/agrovoc/c_34079", "polymerization", "community structure", "abonos inorg\u00e1nicos", "management", "570", "http://aims.fao.org/aos/agrovoc/c_7170", "http://aims.fao.org/aos/agrovoc/c_7172", "flore microbienne", "soil", "http://aims.fao.org/aos/agrovoc/c_36167", "micro-organisme du sol", "http://aims.fao.org/aos/agrovoc/c_10176", "organic fertilizers", "abonos org\u00e1nicos", "pratique culturale", "microorganismos del suelo", "suelo", "flore du sol", "P35 - Fertilit\u00e9 du sol", "P34 - Biologie du sol", "polimerizaci\u00f3n", "15. Life on land", "engrais min\u00e9ral", "http://aims.fao.org/aos/agrovoc/c_16367", "http://aims.fao.org/aos/agrovoc/c_4086", "0401 agriculture", " forestry", " and fisheries", "F04 - Fertilisation"]}, "links": [{"href": "https://doi.org/10.1007/s00374-011-0539-3"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Biology%20and%20Fertility%20of%20Soils", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00374-011-0539-3", "name": "item", "description": "10.1007/s00374-011-0539-3", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00374-011-0539-3"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2011-01-19T00:00:00Z"}}, {"id": "10.1007/s10311-013-0420-8", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:15:13Z", "type": "Journal Article", "created": "2013-05-07", "title": "Soil Microbial Diversity And C Turnover Modified By Tillage And Cropping In Laos Tropical Grassland", "description": "Agricultural practices should modify the diversity of soil microbes. However, the precise relationships between soil properties and microbial diversity are poorly known. Here, we study the effect of agricultural management on soil microbial diversity and C turnover in tropical grassland of north-eastern Laos. Three years after native grassland conversion into agricultural land, we compared soils from five land use management systems: one till versus two no-till rotational cropping systems, one no-till improved pasture and the natural grassland. Soils were incubated in microcosms during 64 days at optimum temperature and humidity. Bacterial and fungal diversity were evaluated by metagenomic 454-pyrosequencing of 16S and 18SrRNA genes, respectively. Changes in soil respiration patterns were evaluated by monitoring 12C- and 13C-CO2 release after soil amendment with 13C-labelled wheat residues. Results show that residue mineralization increased with bacterial richness and diversity in the tilled treatment 7 days after soil amendment. Native soil organic C mineralization and priming effect increased with fungal richness and diversity in improved pasture and natural grassland. No-till cropping systems represented intermediate situations between tillage and pasture systems. Our findings evidence the potential of controlling soil microbial diversity by agricultural practices to improve soil biological properties. We suggest the promotion of no-till systems as a fair compromise between the need for agriculture intensification and soil ecological processes preservation.", "keywords": ["P33 - Chimie et physique du sol", "cycle du carbone", "Microbial diversity", "Conservation agriculture", "F08 - Syst\u00e8mes et modes de culture", "agro\u00e9cologie", "http://aims.fao.org/aos/agrovoc/c_7172", "[SDV.SA.SDS]Life Sciences [q-bio]/Agricultural sciences/Soil study", "630", "Tillage", "biodiversit\u00e9", "labour", "Acid savannah", "http://aims.fao.org/aos/agrovoc/c_12076", "biologie du sol", "http://aims.fao.org/aos/agrovoc/c_33990", "http://aims.fao.org/aos/agrovoc/c_2018", "sol acide", "Priming effect", "savane", "[SDV.SA.SDS] Life Sciences [q-bio]/Agricultural sciences/Soil study", "http://aims.fao.org/aos/agrovoc/c_6154", "pratique culturale", "http://aims.fao.org/aos/agrovoc/c_8511", "F07 - Fa\u00e7ons culturales", "2. Zero hunger", "flore du sol", "http://aims.fao.org/aos/agrovoc/c_33949", "P35 - Fertilit\u00e9 du sol", "prairie", "http://aims.fao.org/aos/agrovoc/c_7160", "P34 - Biologie du sol", "Carbon cycle", "non-travail du sol", "04 agricultural and veterinary sciences", "15. Life on land", "travail du sol", "rotation culturale", "http://aims.fao.org/aos/agrovoc/c_92381", "[SDE.BE] Environmental Sciences/Biodiversity and Ecology", "exp\u00e9rimentation au champ", "http://aims.fao.org/aos/agrovoc/c_6825", "0401 agriculture", " forestry", " and fisheries", "http://aims.fao.org/aos/agrovoc/c_17299", "[SDE.BE]Environmental Sciences/Biodiversity and Ecology", "http://aims.fao.org/aos/agrovoc/c_6021", "http://aims.fao.org/aos/agrovoc/c_89", "http://aims.fao.org/aos/agrovoc/c_7771", "http://aims.fao.org/aos/agrovoc/c_6662"]}, "links": [{"href": "https://doi.org/10.1007/s10311-013-0420-8"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Chemistry%20Letters", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s10311-013-0420-8", "name": "item", "description": "10.1007/s10311-013-0420-8", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s10311-013-0420-8"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-05-08T00:00:00Z"}}, {"id": "10.1016/j.still.2008.10.008", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:17:46Z", "type": "Journal Article", "created": "2008-12-06", "title": "Soil Microbial Communities Under Different Soybean Cropping Systems: Characterization Of Microbial Population Dynamics, Soil Microbial Activity, Microbial Biomass, And Fatty Acid Profiles", "description": "This work analyzes the direct effect of soil management practices on soil microbial communities, which may affect soil productivity and sustainability. The experimental design consisted of two tillage treatments: reduced tillage (RT) and zero tillage (ZT), and three crop rotation treatments: continuous soybean (SS), corn\u2013soybean (CS), and soybean\u2013corn (SC). Soil samples were taken at soybean planting and harvest. The following quantifications were performed: soil microbial populations by soil dilution plate technique on selective and semi-selective culture media; microbial respiration and microbial biomass by chloroform fumigation-extraction; microbial activity by fluorescein diacetate hydrolysis; and fatty acid methyl ester (FAME) profiles. Soil chemical parameters were also quantified. Soil organic matter content was significantly lower in RT and SS sequence crops, whereas soil pH and total N were significantly higher in CS and SC sequence crops. Trichoderma and Gliocladium populations were lower under RTSS and ZTSS treatments. Except in a few cases, soil microbial respiration, biomass and activity were higher under zero tillage than under reduced tillage, both at planting and harvest sampling times. Multivariate analyses of FAMEs clearly separated both RT and ZT management practices at each sampling time; however, separation of sequence crops was less evident. In our experiments ZT treatment had highest proportion of 10Me 16:0, an actinomycetes biomarker, and 16:1\u03c99 and 18:1\u03c97, two fatty acids associated with organic matter content and substrate availability. In contrast, RT treatment had highest content of branched biomarkers (i15:0 and i16:0) and of cy19:0, fatty acids associated with cell stasis and/or stress. As cultural practices can influence soil microbial populations, it is important to analyze the effect that they produce on biological parameters, with the aim of conserving soil richness over time. Thus, in a soybean-based cropping system, appropriate crop management is necessary for a sustainable productivity without reducing soil quality.", "keywords": ["2. Zero hunger", "Bacteria", "Cropping System", "Fungi", "Soybean Management", "04 agricultural and veterinary sciences", "15. Life on land", "Soil Microflora", "6. Clean water", "12. Responsible consumption", "https://purl.org/becyt/ford/4.1", "0401 agriculture", " forestry", " and fisheries", "https://purl.org/becyt/ford/4", "Microbial Diversity"], "contacts": [{"organization": "Meriles, Jose Manuel, Vargas Gil, Silvina, Conforto, Cinthia, Figoni, Gervasio, Lovera, Edgar, March, Guillermo Juan, Guzman, Carlos Alberto,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1016/j.still.2008.10.008"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Soil%20and%20Tillage%20Research", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.still.2008.10.008", "name": "item", "description": "10.1016/j.still.2008.10.008", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.still.2008.10.008"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2009-05-01T00:00:00Z"}}, {"id": "10.1016/j.ecolmodel.2023.110507", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:16:30Z", "type": "Journal Article", "created": "2023-10-10", "title": "Interactive effects of microbial functional diversity and carbon availability on decomposition \u2013 A theoretical exploration", "description": "<div><p>Microbial functional diversity in litter and soil has been hypothesized to affect the rate of decomposition of organic matter and other soil ecosystem functions. However, there are no clear theoretical expectations on how these effects might change with substrate availability, heterogeneity in the substrate chemistry, and different aspects of functional diversity itself (number of microbial groups vs. distribution of functional traits). To explore how these factors shape the decomposition-diversity relation, we carry out numerical experiments using a flexible reaction network comprising microbial processes and interactions with bioavailable carbon (extracellular degradation, uptake, respiration, growth, and mortality), and ecological processes (competition among the different groups). We also considered diverse carbon substrates, in terms of varying nominal oxidation state of carbon (NOSC). The reaction network was used to test the effects of (i) number of microbial groups, (ii) number of carbon pools, (iii) microbial functional diversity, and (iv) amount of bioavailable carbon. We found that the decomposition rate constant increases with increasing substrate concentration and heterogeneity, as well as with increasing microbial functional diversity or variance of microbial traits, albeit these biological factors are less important. The multivariate dependence of the decomposition rate constant (and other decomposition and microbial growth metrics) on substrate and microbial factors can be described using power laws with exponents lower than one, indicating that diversity effects on decomposition and microbial growth are reduced at high substrate concentration and heterogeneity, or at high microbial diversity.</p></div>", "keywords": ["Microbial model Organic matter decomposition Organic carbon oxidation state Decomposition kinetics Microbial diversity", "[SDE] Environmental Sciences", "2. Zero hunger", "Organic matter decomposition", "Supplementary Information", "GE", "Ecology", "330", "GF Human ecology. Anthropogeography", "15. Life on land", "ta4112", "GF", "6. Clean water", "12. Responsible consumption", "Ecological Modelling", "Decomposition kinetics", "13. Climate action", "Microbial functional trait", "Microbial diversity-function relation", "Microbial model", "GE Environmental Sciences", "Organic carbon oxidation state"]}, "links": [{"href": "https://doi.org/10.1016/j.ecolmodel.2023.110507"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecological%20Modelling", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.ecolmodel.2023.110507", "name": "item", "description": "10.1016/j.ecolmodel.2023.110507", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.ecolmodel.2023.110507"}, {"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": "10.1016/j.gecco.2016.03.009", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:16:54Z", "type": "Journal Article", "created": "2016-04-08", "title": "High Quality Residues From Cover Crops Favor Changes In Microbial Community And Enhance C And N Sequestration", "description": "The objective of the study was to evaluate the effect of a change in management on the soil microbial community and C sequestration. We conducted a 3-year field study in La Pampa (Argentina) with rotation of sorghum (Sorghum bicolor) in zero tillage alternating with rye (Secale cereale) and vetch (Vicia villosa ssp. dasycarpa). Soil was sampled once a year at two depths. Soil organic matter fractions, dissolved organic matter, microbial biomass (MBC) and community composition (DNA extraction, qPCR, and phospholipid FAME profiles) were determined. Litter, aerial- and root biomass were collected and all material was analyzed for C and N. Results showed a rapid response of microbial biomass to a bacterial dominance independent of residue quality. Vetch had the highest diversity index, while the fertilized treatment had the lowest one. Vetch\u2013sorghum rotation with high N mineralization rates and diverse microbial community sequestered more C and N in stable soil organic matter fractions than no-till sorghum alone or with rye, which had lower N turnover rates. These results reaffirm the importance of enhanced soil biodiversity for maintaining soil ecosystem functioning and services. The supply of high amounts of N-rich residues as provided by grass\u2013legume cover crops could fulfill this objective.", "keywords": ["Cultivos de Cobertura", "2. Zero hunger", "Microbial diversity", "Ecology", "Plantas de Cobertura", "Nitr\u00f3geno", "Ecolog\u00eda Microbiana", "Nitrogen", "Microbial biomass C and N", "Carb\u00f3n", "Coil", "No-till", "04 agricultural and veterinary sciences", "15. Life on land", "6. Clean water", "Microbial Ecology", "Fungal/bacteria ratio", "11. Sustainability", "Particulate C and N", "0401 agriculture", " forestry", " and fisheries", "Mineral associated C and N", "QH540-549.5", "Cover Plants"]}, "links": [{"href": "https://doi.org/10.1016/j.gecco.2016.03.009"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Global%20Ecology%20and%20Conservation", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.gecco.2016.03.009", "name": "item", "description": "10.1016/j.gecco.2016.03.009", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.gecco.2016.03.009"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2016-04-01T00:00:00Z"}}, {"id": "10.1016/j.scitotenv.2022.156952", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:17:25Z", "type": "Journal Article", "created": "2022-06-22", "title": "Integrated organic and inorganic fertilization and reduced irrigation altered prokaryotic microbial community and diversity in different compartments of wheat root zone contributing to improved nitrogen uptake and wheat yield", "description": "Open AccessThe effect of long-term water and integrated fertilization on prokaryotic microorganisms and their regulation for crop nutrient uptake remains unknown. Therefore, the impact of soil water and integrated fertilization after eight years on prokaryotic microbial communities in different compartments of root zone and their association with wheat nitrogen (N) absorption and yield were investigated. The results showed that compared with fertilization treatments (F), water regimes (W) more drastically modulated the prokaryotic microbial community structure and diversity in bulk soil, rhizosphere and endosphere. The increase of irrigation improved the prokaryotic diversity in the rhizosphere and endosphere while decreased the diversity in the bulk soil. Application of organic fertilizers significantly improved soil organic matter (SOM) and nutrient contents, increased rhizosphere and endophytic prokaryotic microbial diversity, and elevated the relative abundance of aerobic ammonia oxidation and nitrification-related functional microorganisms in rhizosphere and endosphere. Increasing irrigation elevated the relative abundance of functional microorganisms related to aerobic ammonia oxidation and nitrification in the rhizosphere and endosphere. Soil water content (SWC) and NH4+-N as well as NO3\u2212-N were key predictors of prokaryotic microbial community composition under W and F treatments, respectively. Appropriate application of irrigation and organic fertilizers increased the relative abundance of some beneficial bacteria such as Flavobacterium. Water and fertilization treatments regulated the prokaryotic microbial communities of bulk soil, rhizosphere and endosphere by altering SWC and SOM, and provided evidence for the modulation of prokaryotic microorganisms to promote nitrogen uptake and wheat yield under long-term irrigation and fertilization. Conclusively, the addition of organic manure (50 %) with inorganic fertilizers (50 %) and reduced amount of irrigation (pre-sowing and jointing-period irrigation) decreased the application amount of chemical fertilizers and water, while increased SOM and nutrient content, improved prokaryotic diversity, and changed prokaryotic microbial community structure in the wheat root zone, resulting in enhanced nutrient uptake and wheat yield.", "keywords": ["0106 biological sciences", "Yield", "Microorganism", "Microbial population biology", "Nitrogen", "Soil Science", "Organic chemistry", "Plant Science", "01 natural sciences", "Environmental science", "Agricultural and Biological Sciences", "Soil", "Symbiotic Nitrogen Fixation in Legumes", "Soil water", "Genetics", "Fertilizers", "Biology", "Irrigation", "Soil Microbiology", "Triticum", "2. Zero hunger", "Soil organic matter", "Soil Fertility", "Physicochemical factors", "Ecology", "Bacteria", "Microbiota", "Marine Microbial Diversity and Biogeography", "Water", "Life Sciences", "04 agricultural and veterinary sciences", "15. Life on land", "Nitrification", "Agronomy", "6. Clean water", "Chemistry", "Human fertilization", "13. Climate action", "Fertilization", "FOS: Biological sciences", "Environmental Science", "Physical Sciences", "Rhizosphere", "Bulk soil", "0401 agriculture", " forestry", " and fisheries", "Prokaryotic microorganisms", "Endosphere", "Soil Carbon Dynamics and Nutrient Cycling in Ecosystems", "Nutrient"]}, "links": [{"href": "https://doi.org/10.1016/j.scitotenv.2022.156952"}, {"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.2022.156952", "name": "item", "description": "10.1016/j.scitotenv.2022.156952", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.scitotenv.2022.156952"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-10-01T00:00:00Z"}}, {"id": "10.1016/j.soilbio.2019.107701", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:17:40Z", "type": "Journal Article", "created": "2020-01-02", "title": "Do cover crops benefit soil microbiome? A meta-analysis of current research", "description": "Abstract   Cover cropping is a promising sustainable agricultural method with the potential to enhance soil health and mitigate consequences of soil degradation. Because cover cropping can form an agroecosystem distinct from that of bare fallow, the soil microbiome is hypothesized to respond to the altered environmental circumstances. Despite the growing number of primary literature sources investigating the relationship between cover cropping and the soil microbiome, there has not been a quantitative research synthesis that is sufficiently comprehensive and specific to this relationship. We conducted a meta-analysis by compiling the results of 60 relevant studies reporting cover cropping effects on soil microbial properties to estimate global effect sizes and explore the current landscape of this topic. Overall, cover cropping significantly increased parameters of soil microbial abundance, activity, and diversity by 27%, 22%, and 2.5% respectively, compared to those of bare fallow. Moreover, cover cropping effect sizes varied by agricultural covariates like cover crop termination or tillage methods. Notably, cover cropping effects were less pronounced under conditions like continental climate, chemical cover crop termination, and conservation tillage. This meta-analysis showed that the soil microbiome can become more robust under cover cropping when properly managed with other agricultural practices. However, more primary research is still needed to control between-study heterogeneity and to more elaborately assess the relationships between cover cropping and the soil microbiome.", "keywords": ["CLIMATE", "2. Zero hunger", "MICROBIAL ACTIVITY", "13. Climate action", "SOIL ORDER", "https://purl.org/becyt/ford/4.1", "0401 agriculture", " forestry", " and fisheries", "https://purl.org/becyt/ford/4", "AGRONOMY", "MICROBIAL ABUNDANCE", "04 agricultural and veterinary sciences", "15. Life on land", "MICROBIAL DIVERSITY"]}, "links": [{"href": "https://doi.org/10.1016/j.soilbio.2019.107701"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Soil%20Biology%20and%20Biochemistry", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.soilbio.2019.107701", "name": "item", "description": "10.1016/j.soilbio.2019.107701", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.soilbio.2019.107701"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-03-01T00:00:00Z"}}, {"id": "10.1016/j.soilbio.2021.108357", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:17:40Z", "type": "Journal Article", "created": "2021-07-10", "title": "A critical perspective on interpreting amplicon sequencing data in soil ecological research", "description": "Abstract   Microbial community analysis via marker gene amplicon sequencing has become a routine method in the field of soil research. In this perspective, we discuss technical challenges and limitations of amplicon sequencing and present statistical and experimental approaches that can help addressing the spatio-temporal complexity of soil and the high diversity of organisms therein. We illustrate the impact of compositionality on the interpretation of relative abundance data and discuss effects of sample replication on the statistical power in soil community analysis. Additionally, we argue for the need of increased study reproducibility and data availability, as well as complementary techniques for generating deeper ecological insights into microbial roles and our understanding thereof in soil ecosystems. At this stage, we call upon researchers and specialized soil journals to consider the current state of data analysis, interpretation, and availability to improve the rigor of future studies.", "keywords": ["0301 basic medicine", "2. Zero hunger", "Soil microbial diversity", "0303 health sciences", "Soil metabarcoding", "DIVERSITY", "Ecology; Soil microbes; Amplicon sequencing", "Compositional data", "SCALE SPATIAL HETEROGENEITY", "15. Life on land", "BIOMASS", "03 medical and health sciences", "106026 \u00d6kosystemforschung", "Soil complexity", "CARBON-USE EFFICIENCY", "BACTERIA", "DNA EXTRACTION", "MICROORGANISMS", "MICROBIAL COMMUNITIES", "106026 Ecosystem research", "RIBOSOMAL-RNA", "Amplicon sequencing", "Soil microorganisms", "GENERATION"]}, "links": [{"href": "https://doi.org/10.1016/j.soilbio.2021.108357"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Soil%20Biology%20and%20Biochemistry", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.soilbio.2021.108357", "name": "item", "description": "10.1016/j.soilbio.2021.108357", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.soilbio.2021.108357"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-09-01T00:00:00Z"}}, {"id": "10.1016/j.still.2005.08.001", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:17:44Z", "type": "Journal Article", "created": "2005-09-09", "title": "Soil Aggregation And Bacterial Community Structure As Affected By Tillage And Cover Cropping In The Brazilian Cerrados", "description": "<p>Microbial-based indicators of soil quality are believed to be more dynamic than those based on physical and chemical properties. Recent developments in molecular biology based techniques have led to rapid and reliable tools to characterize microbial community structures. We determined the effects of conventional and no-tillage in cropping systems with and without cover crops on bacterial community structure, total organic carbon (TOC) and soil aggregation. Tillage and rotation did not affect TOC from bulk soil. However, TOC was greater in the largest aggregate size class (7.98-19 mm), and had greater mean-weight diameter under no-tillage than under conventional tillage in the 0-5 cm soil layer. Soil bacterial community structure, based on denaturing gradient gel electrophoresis of polymerase chain reaction amplified DNA (PCR/DGGE) using two different genes as biomarkers, 16S rRNA and rpoB genes, indicated different populations in response to cultivation, tillage and depth, but not due to cover cropping. Soil bacterial community structure and meanweight diameter of soil aggregates indicated alterations in soil conditions due to tillage system. (c) 2005 Elsevier B.V. All rights reserved.</p>", "keywords": ["2. Zero hunger", "GENES", "Cerrados", "16S RIBOSOMAL-RNA", "no-tillage", "04 agricultural and veterinary sciences", "15. Life on land", "DGGE profiling", "SUSTAINABILITY", "PCR", "16S rDNA", "GRADIENT GEL-ELECTROPHORESIS", "MANAGEMENT", "0401 agriculture", " forestry", " and fisheries", "NO-TILLAGE", "HETEROGENEITY", "DGGE", "soil structure", "rpoB", "MICROBIAL DIVERSITY"]}, "links": [{"href": "https://doi.org/10.1016/j.still.2005.08.001"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Soil%20and%20Tillage%20Research", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.still.2005.08.001", "name": "item", "description": "10.1016/j.still.2005.08.001", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.still.2005.08.001"}, {"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": "10.1038/s41467-019-11472-7", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:18:23Z", "type": "Journal Article", "created": "2019-08-02", "title": "Global ecological predictors of the soil priming effect", "description": "Abstract<p>Identifying the global drivers of soil priming is essential to understanding C cycling in terrestrial ecosystems. We conducted a survey of soils across 86 globally-distributed locations, spanning a wide range of climates, biotic communities, and soil conditions, and evaluated the apparent soil priming effect using13C-glucose labeling. Here we show that the magnitude of the positive apparent priming effect (increase in CO2release through accelerated microbial biomass turnover) was negatively associated with SOC content and microbial respiration rates. Our statistical modeling suggests that apparent priming effects tend to be negative in more mesic sites associated with higher SOC contents. In contrast, a single-input of labile C causes positive apparent priming effects in more arid locations with low SOC contents. Our results provide solid evidence that SOC content plays a critical role in regulating apparent priming effects, with important implications for the improvement of C cycling models under global change scenarios.</p", "keywords": ["DECOMPOSITION", "550", "Science", "ECOSYSTEM MULTIFUNCTIONALITY", "Veterinary and Food Sciences", "41 Environmental Sciences", "anzsrc-for: 3007 Forestry Sciences", "30 Agricultural", "01 natural sciences", "630", "Article", "anzsrc-for: 41 Environmental Sciences", "anzsrc-for: 30 Agricultural", "XXXXXX - Unknown", "4101 Climate Change Impacts and Adaptation", "anzsrc-for: 31 Biological Sciences", "0105 earth and related environmental sciences", "2. Zero hunger", "Q", "CARBON USE EFFICIENCY", "3007 Forestry Sciences", "04 agricultural and veterinary sciences", "15. Life on land", "MICROBIAL DIVERSITY DRIVES", "LABILE CARBON", "NITROGEN", "COMMUNITY", "CLIMATE", "anzsrc-for: 4101 Climate Change Impacts and Adaptation", "ORGANIC-MATTER", "PHOSPHORUS", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "31 Biological Sciences"]}, "links": [{"href": "https://escholarship.org/content/qt97s664fx/qt97s664fx.pdf"}, {"href": "https://escholarship.org/content/qt6239t2d4/qt6239t2d4.pdf"}, {"href": "https://eprints.ncl.ac.uk/fulltext.aspx?url=259028/2D523771-EC44-4DAA-B892-F79848785D9A.pdf&pub_id=259028"}, {"href": "https://doi.org/10.1038/s41467-019-11472-7"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Nature%20Communications", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1038/s41467-019-11472-7", "name": "item", "description": "10.1038/s41467-019-11472-7", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1038/s41467-019-11472-7"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-08-02T00:00:00Z"}}, {"id": "10.1038/s41559-019-1084-y", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:18:25Z", "type": "Journal Article", "created": "2020-02-03", "title": "Multiple elements of soil biodiversity drive ecosystem functions across biomes", "description": "The role of soil biodiversity in regulating multiple ecosystem functions is poorly understood, limiting our ability to predict how soil biodiversity loss might affect human wellbeing and ecosystem sustainability. Here, combining a global observational study with an experimental microcosm study, we provide evidence that soil biodiversity (bacteria, fungi, protists and invertebrates) is significantly and positively associated with multiple ecosystem functions. These functions include nutrient cycling, decomposition, plant production, and reduced potential for pathogenicity and belowground biological warfare. Our findings also reveal the context dependency of such relationships and the importance of the connectedness, biodiversity and nature of the globally distributed dominant phylotypes within the soil network in maintaining multiple functions. Moreover, our results suggest that the positive association between plant diversity and multifunctionality across biomes is indirectly driven by soil biodiversity. Together, our results provide insights into the importance of soil biodiversity for maintaining soil functionality locally and across biomes, as well as providing strong support for the inclusion of soil biodiversity in conservation and management programmes.", "keywords": ["0301 basic medicine", "NETWORK ANALYSIS", "Life on Land", "STERILIZATION METHODS", "biotic communities", "CARBON", "Soil", "03 medical and health sciences", "XXXXXX - Unknown", "Humans", "soils", "Ecosystem", "Soil Microbiology", "biodiversity", "2. Zero hunger", "0303 health sciences", "SEQUENCES", "Fungi", "Biodiversity", "15. Life on land", "COMMUNITY", "13. Climate action", "BACTERIA", "MULTIFUNCTIONALITY", "ecosystems", "MICROBIAL DIVERSITY"]}, "links": [{"href": "https://escholarship.org/content/qt1938c590/qt1938c590.pdf"}, {"href": "https://doi.org/10.1038/s41559-019-1084-y"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Nature%20Ecology%20%26amp%3B%20Evolution", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1038/s41559-019-1084-y", "name": "item", "description": "10.1038/s41559-019-1084-y", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1038/s41559-019-1084-y"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-02-03T00:00:00Z"}}, {"id": "10.1038/srep19536", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:18:30Z", "type": "Journal Article", "created": "2016-01-14", "title": "Soil Microbial Responses To Forest Floor Litter Manipulation And Nitrogen Addition In A Mixed-Wood Forest Of Northern China", "description": "Abstract<p>Changes in litterfall dynamics and soil properties due to anthropogenic or natural perturbations have important implications to soil carbon (C) and nutrient cycling via microbial pathway. Here we determine soil microbial responses to contrasting types of litter inputs (leaf vs. fine woody litter) and nitrogen (N) deposition by conducting a multi-year litter manipulation and N addition experiment in a mixed-wood forest. We found significantly higher soil organic C, total N, microbial biomass C (MBC) and N (MBN), microbial activity (MR) and activities of four soil extracellular enzymes, including \uffce\uffb2-glucosidase (BG), N-acetyl-\uffce\uffb2-glucosaminidase (NAG), phenol oxidase (PO) and peroxidase (PER), as well as greater total bacteria biomass and relative abundance of gram-negative bacteria (G-) community, in top soils of plots with presence of leaf litter than of those without litter or with presence of only fine woody litter. No apparent additive or interactive effects of N addition were observed in this study. The occurrence of more labile leaf litter stimulated G-, which may facilitate microbial community growth and soil C stabilization as inferred by findings in literature. A continued treatment with contrasting types of litter inputs is likely to result in divergence in soil microbial community structure and function.</p>", "keywords": ["Biomass (ecology)", "China", "Biogeochemical Cycling of Nutrients in Aquatic Ecosystems", "Microbial population biology", "Nitrogen", "Soil Science", "Organic chemistry", "Forests", "Nitrogen cycle", "Article", "Plant litter", "Nutrient cycle", "Environmental science", "Microbial Ecology", "Agricultural and Biological Sciences", "Soil", "Soil biology", "Litter", "Soil water", "Genetics", "Environmental Chemistry", "Biomass", "Forest floor", "Biology", "Soil Microbiology", "Ecosystem", "2. Zero hunger", "Ecology", "Bacteria", "Marine Microbial Diversity and Biogeography", "Life Sciences", "04 agricultural and veterinary sciences", "15. Life on land", "Wood", "Soil carbon", "Carbon", "Agronomy", "6. Clean water", "3. Good health", "Chemistry", "FOS: Biological sciences", "Environmental Science", "Physical Sciences", "0401 agriculture", " forestry", " and fisheries", "Soil Carbon Dynamics and Nutrient Cycling in Ecosystems", "Nutrient"]}, "links": [{"href": "https://doi.org/10.1038/srep19536"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Scientific%20Reports", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1038/srep19536", "name": "item", "description": "10.1038/srep19536", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1038/srep19536"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2016-01-14T00:00:00Z"}}, {"id": "10.1111/ecog.05478", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:19:21Z", "type": "Journal Article", "created": "2021-05-07", "title": "Multi\u2010taxa colonisation along the foreland of a vanishing equatorial glacier", "description": "<p>Retreating glaciers, icons of climate change, release new potential habitats for both aquatic and terrestrial organisms. High\uffe2\uff80\uff90elevation species are threatened by temperature increases and the upward migration of lowlands species. Improving our understanding of successional processes after glacier retreat becomes urgent, especially in the tropics, where glacier shrinkage is particularly fast. We examined the successional patterns of aquatic invertebrates, ground beetles, terrestrial plants, soil eukaryotes (algae, invertebrates, plants) in an equatorial glacier foreland (Carihuairazo, Ecuador). Based on both taxonomical identification and eDNA metabarcoding, we analysed the effects of both environmental conditions and age of deglacierization on community composition. Except for algae, diversity increased with time since deglacierization, especially among passive dispersers, suggesting that dispersal was a key driver structuring the glacier foreland succession. Spatial \uffce\uffb2\uffe2\uff80\uff90diversity was mainly attributed to nestedness for aquatic invertebrates, terrestrial plants and soil algae, likely linked to low environmental variability within the studied glacier foreland; and to turnover for soil invertebrates, suggesting competition exclusion at the oldest successional stage. Pioneer communities were dominated by species exhibiting flexible feeding strategies and high dispersal ability (mainly transported by wind), probably colonising from lower altitudes, or from the glacier in the case of algae. Overall, glacier foreland colonisation in the tropics exhibit common characteristics to higher latitudes. High\uffe2\uff80\uff90elevation species are nevertheless threatened, as the imminent extinction of many tropical glaciers will affect species associated to glacier\uffe2\uff80\uff90influenced habitats but also prevent cold\uffe2\uff80\uff90adapted and hygrophilous species from using these habitats as refuges in a warming world.</p>", "keywords": ["Colonization", "[SDV.BID.SPT]Life Sciences [q-bio]/Biodiversity/Systematics", "550", "Early succession", "glacier retreat", "Sociology", "[SDV.EE.ECO] Life Sciences [q-bio]/Ecology", " environment/Ecosystems", "Environmental DNA Sequencing", "Glacier", "Ecology", "Geography", "early succession", "Life Sciences", "Phylogenetics and taxonomy", "Biodiversity", "[SDV.BV.BOT]Life Sciences [q-bio]/Vegetal Biology/Botanics", "Threatened species", "FOS: Sociology", "Multiple-taxa", "multiple-taxa", "Habitat", "[SDE]Environmental Sciences", "Physical Sciences", "environment/Ecosystems", "570", "Physical geography", "Population", "Global Diversity of Microbial Eukaryotes and Their Evolution", "[SDV.BV.BOT] Life Sciences [q-bio]/Vegetal Biology/Botanics", "Ecological succession", "Biochemistry", " Genetics and Molecular Biology", "Biological dispersal", "[SDV.BID.SPT] Life Sciences [q-bio]/Biodiversity/Systematics", " Phylogenetics and taxonomy", "equatorial glacier foreland", "Equatorial glacier foreland", "Glacier retreat", "Molecular Biology", "Biology", "Demography", "Marine Microbial Diversity and Biogeography", "Colonisation", "South America", "15. Life on land", "[SDE.BE] Environmental Sciences/Biodiversity and Ecology", "13. Climate action", "FOS: Biological sciences", "[SDV.EE.ECO]Life Sciences [q-bio]/Ecology", "Environmental Science", "[SDE.BE]Environmental Sciences/Biodiversity and Ecology", "early succession; equatorial glacier foreland; glacier retreat; multiple-taxa", "Environmental DNA in Biodiversity Monitoring"]}, "links": [{"href": "https://air.unimi.it/bitstream/2434/851699/2/rosero%202021.pdf"}, {"href": "https://onlinelibrary.wiley.com/doi/pdf/10.1111/ecog.05478"}, {"href": "https://doi.org/10.1111/ecog.05478"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecography", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/ecog.05478", "name": "item", "description": "10.1111/ecog.05478", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/ecog.05478"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-05-06T00:00:00Z"}}, {"id": "10.1111/j.1365-2486.2011.02585.x", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:19:37Z", "type": "Journal Article", "created": "2011-10-24", "title": "High Nitrogen Deposition Alters The Decomposition Of Bog Plant Litter And Reduces Carbon Accumulation", "description": "Abstract<p>Bogs are globally important sinks of atmospheric carbon (C) due to the accumulation of partially decomposed litter that forms peat. Because bogs receive their nutrients from the atmosphere, the world\uffe2\uff80\uff90wide increase of nitrogen (N) deposition is expected to affect litter decomposition and, ultimately, the rate of C accumulation. However, the mechanism of such biogeochemical alteration remains unclear and quantification of the effect of N addition on litter accumulation has yet to be done. Here, we show that 7\uffc2\uffa0years of N addition to a bog decreased the C\uffc2\uffa0:\uffc2\uffa0N ratio, increased the bacterial biomass and stimulated the activity of hydrolytic and oxidative enzymes in surface peat. Furthermore, N addition modified nutrient limitation of microbes during litter decomposition so that phosphorus became a primary limiting nutrient. Alteration of N release from decomposing litter affected bog water chemistry and the competitive balance between peat\uffe2\uff80\uff90forming mosses and vascular plants. We estimate that deposition of about 4 g\uffc2\uffa0N\uffc2\uffa0m\uffe2\uff88\uff922\uffc2\uffa0yr\uffe2\uff88\uff921 will cause a mean annual reduction of fresh litter C accumulation of about 40\uffc2\uffa0g\uffc2\uffa0m\uffe2\uff88\uff922 primarily as a consequence of decreased litter production from peat\uffe2\uff80\uff90forming mosses. Our findings show that N deposition interacts with both above and below ground components of biodiversity to threaten the ability of bogs to act as N\uffe2\uff80\uff90sinks, which may offset the positive effects of N on C accumulation seen in other ecosystems.</p>", "keywords": ["570", "Decomposition; litter accumulation modelling; microbial diversity; peatland; primary production; soil enzymatic activity; Sphagnum; vascular plants", "decomposition", "04 agricultural and veterinary sciences", "litter accumulation modelling", "soil enzymatic activity", "15. Life on land", "S phagnum", "13. Climate action", "microbial diversity", "0401 agriculture", " forestry", " and fisheries", "peatland", "vascular plants", "primary production"]}, "links": [{"href": "https://doi.org/10.1111/j.1365-2486.2011.02585.x"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Global%20Change%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/j.1365-2486.2011.02585.x", "name": "item", "description": "10.1111/j.1365-2486.2011.02585.x", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/j.1365-2486.2011.02585.x"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2011-11-23T00:00:00Z"}}, {"id": "10.1111/j.1461-0248.2006.00965.x", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:19:40Z", "type": "Journal Article", "created": "2006-09-12", "title": "Resource Availability Controls Fungal Diversity Across A Plant Diversity Gradient", "description": "Abstract<p>Despite decades of research, the ecological determinants of microbial diversity remain poorly understood. Here, we test two alternative hypotheses concerning the factors regulating fungal diversity in soil. The first states that higher levels of plant detritus production increase the supply of limiting resources (i.e. organic substrates) thereby increasing fungal diversity. Alternatively, greater plant diversity increases the range of organic substrates entering soil, thereby increasing the number of niches to be filled by a greater array of heterotrophic fungi. These two hypotheses were simultaneously examined in experimental plant communities consisting of one to 16 species that have been maintained for a decade. We used ribosomal intergenic spacer analysis (RISA), in combination with cloning and sequencing, to quantify fungal community composition and diversity within the experimental plant communities. We used soil microbial biomass as a temporally integrated measure of resource supply. Plant diversity was unrelated to fungal diversity, but fungal diversity was a unimodal function of resource supply. Canonical correspondence analysis (CCA) indicated that plant diversity showed a relationship to fungal community composition, although the occurrence of RISA bands and operational taxonomic units (OTUs) did not differ among the treatments. The relationship between fungal diversity and resource availability parallels similar relationships reported for grasslands, tropical forests, coral reefs, and other biotic communities, strongly suggesting that the same underlying mechanisms determine the diversity of organisms at multiple scales.</p>", "keywords": ["0301 basic medicine", "Plant Diversity", "0303 health sciences", "Science", "Ecology and Evolutionary Biology", "Fungi", "Biodiversity", "15. Life on land", "Plants", "Cedar Creek Natural History Area", "Fungal Diversity", "Microbial Biomass", "03 medical and health sciences", "Resource Availability", "Diversity-productivity Hypothesis", "Soil Microbiology", "Microbial Diversity"]}, "links": [{"href": "https://doi.org/10.1111/j.1461-0248.2006.00965.x"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecology%20Letters", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/j.1461-0248.2006.00965.x", "name": "item", "description": "10.1111/j.1461-0248.2006.00965.x", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/j.1461-0248.2006.00965.x"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2006-09-12T00:00:00Z"}}, {"id": "10.1186/s40793-023-00479-9", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:20:06Z", "type": "Journal Article", "created": "2023-03-30", "title": "Abundance, classification and genetic potential of Thaumarchaeota in metagenomes of European agricultural soils: a meta-analysis", "description": "Abstract                 Background                 <p>For a sustainable production of food, research on agricultural soil microbial communities is inevitable. Due to its immense complexity, soil is still some kind of black box. Soil study designs for identifying microbiome members of relevance have various scopes and focus on particular environmental factors. To identify common features of soil microbiomes, data from multiple studies should be compiled and processed. Taxonomic compositions and functional capabilities of microbial communities associated with soils and plants have been identified and characterized in the past few decades. From a fertile Loess\uffe2\uff80\uff93Chernozem-type soil located in Germany, metagenomically assembled genomes (MAGs) classified as members of the phylum Thaumarchaeota/Thermoproteota were obtained. These possibly represent keystone agricultural soil community members encoding functions of relevance for soil fertility and plant health. Their importance for the analyzed microbiomes is corroborated by the fact that they were predicted to contribute to the cycling of nitrogen, feature the genetic potential to fix carbon dioxide and possess genes with predicted functions in plant-growth-promotion (PGP). To expand the knowledge on soil community members belonging to the phylum Thaumarchaeota, we conducted a meta-analysis integrating primary studies on European agricultural soil microbiomes.</p>                                Results                 <p>Taxonomic classification of the selected soil metagenomes revealed the shared agricultural soil core microbiome of European soils from 19 locations. Metadata reporting was heterogeneous between the different studies. According to the available metadata, we separated the data into 68 treatments. The phylum Thaumarchaeota is part of the core microbiome and represents a major constituent of the archaeal subcommunities in all European agricultural soils. At a higher taxonomic resolution, 2074 genera constituted the core microbiome. We observed that viral genera strongly contribute to variation in taxonomic profiles. By binning of metagenomically assembled contigs, Thaumarchaeota MAGs could be recovered from several European soil metagenomes. Notably, many of them were classified as members of the family Nitrososphaeraceae, highlighting the importance of this family for agricultural soils. The specific Loess-Chernozem Thaumarchaeota MAGs were most abundant in their original soil, but also seem to be of importance in other agricultural soil microbial communities. Metabolic reconstruction of Switzerland_1_MAG_2 revealed its genetic potential i.a. regarding carbon dioxide (CO$$_2$$                                                                   2                                        ) fixation, ammonia oxidation, exopolysaccharide production and a beneficial effect on plant growth. Similar genetic features were also present in other reconstructed MAGs. Three Nitrososphaeraceae MAGs are all most likely members of a so far unknown genus.</p>                                Conclusions                 <p>On a broad view, European agricultural soil microbiomes are similarly structured. Differences in community structure were observable, although analysis was complicated by heterogeneity in metadata recording. Our study highlights the need for standardized metadata reporting and the benefits of networking open data. Future soil sequencing studies should also consider high sequencing depths in order to enable reconstruction of genome bins. Intriguingly, the family Nitrososphaeraceae commonly seems to be of importance in agricultural microbiomes.</p>", "keywords": ["2. Zero hunger", "570", "Soil microbial diversity", "Metagenomically assembled genomes", "Research", "European soil", "Open metagenome data analysis", "15. Life on land", "Microbiology", "Thaumarchaeota", "QR1-502", "Environmental sciences", "Agricultural microbiome", "Soil health", "GE1-350"]}, "links": [{"href": "https://link.springer.com/content/pdf/10.1186/s40793-023-00479-9.pdf"}, {"href": "https://doi.org/10.1186/s40793-023-00479-9"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Microbiome", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1186/s40793-023-00479-9", "name": "item", "description": "10.1186/s40793-023-00479-9", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1186/s40793-023-00479-9"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-03-30T00:00:00Z"}}, {"id": "10.1111/jam.13606", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:19:48Z", "type": "Journal Article", "created": "2017-10-09", "title": "Soil Microbiota Respond To Green Manure In Organic Vineyards", "description": "The aim of this work was to investigate the effects of biodynamic management with and without the addition of green manure, in comparison with organic management, on the microbiota in vineyards soil.High throughput sequencing was used to compare the taxonomic structure of the soil bacterial and fungal communities from vineyards managed with different methods (organic, biodynamic or biodynamic with green manure). Our results showed that microbial communities associated with biodynamic and organic farming systems were very similar, while green manure was the greatest source of soil microbial biodiversity and significantly changed microbial richness and community composition compared with other soils. Green manure also significantly enriched bacterial taxa involved in the soil nitrogen cycle (e.g. Microvirga sp., Pontibacter sp. and Nitrospira sp.).Our results showed that the diversity and composition of the microbial communities associated with biodynamic and organic farming systems were similar, indicating that the use of biodynamic preparations 500 and 501 did not cause any significant detectable changes to the soil microbial community in the short term, while the effects of green manure were significant in soil microbiota.The microbiological richness and structure of soil are used as a sensitive indicator of soil quality. The extension of organic/biodynamic farming, associated with green manure application, could contribute to increase the abundance of functional groups of biological and agronomical relevance and maintaining microbial biodiversity in vineyard soils.", "keywords": ["0301 basic medicine", "2. Zero hunger", "570", "Microbial diversity", "Organic Agriculture", "0303 health sciences", "bacteria; biodynamic vineyard; fungi; green manure; microbial community structure; microbial diversity; organic vineyard; soil microbiology; soil vineyard", "Microbiota", "Green manure", "Microbial community structure", "Biodiversity", "15. Life on land", "630", "Manure", "Soil vineyard", "Soil", "03 medical and health sciences", "Soil microbiology", "13. Climate action", "Settore AGR/16 - MICROBIOLOGIA AGRARIA", "Vitis", "Soil Microbiology"]}, "links": [{"href": "https://iris.unitn.it/bitstream/11572/283669/1/jam.13606.pdf"}, {"href": "https://doi.org/10.1111/jam.13606"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20Applied%20Microbiology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/jam.13606", "name": "item", "description": "10.1111/jam.13606", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/jam.13606"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-11-03T00:00:00Z"}}, {"id": "10.3389/fmicb.2016.01032", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:21:31Z", "type": "Journal Article", "created": "2016-06-30", "title": "Effects Of Short-Term Warming And Altered Precipitation On Soil Microbial Communities In Alpine Grassland Of The Tibetan Plateau", "description": "Open AccessSoil microbial communities are influenced by climate change drivers such as warming and altered precipitation. These changes create abiotic stresses, including desiccation and nutrient limitation, which act on microbes. However, our understanding of the responses of microbial communities to co-occurring climate change drivers is limited. We surveyed soil bacterial and fungal diversity and composition after a 1-year warming and altered precipitation manipulation in the Tibetan plateau alpine grassland. In isolation, warming and decreased precipitation treatments each had no significant effects on soil bacterial community structure; however, in combination of both treatments altered bacterial community structure (p = 0.03). The main effect of altered precipitation specifically impacted the relative abundances of Bacteroidetes and Gammaproteobacteria compared to the control, while the main effect of warming impacted the relative abundance of Betaproteobacteria. In contrast, the fungal community had no significant response to the treatments after 1-year. Using structural equation modeling (SEM), we found bacterial community composition was positively related to soil moisture. Our results indicate that short-term climate change could cause changes in soil bacterial community through taxonomic shifts. Our work provides new insights into immediate soil microbial responses to short-term stressors acting on an ecosystem that is particularly sensitive to global climate change.", "keywords": ["Abiotic component", "Microbial population biology", "Climate Change", "Soil Science", "Precipitation", "soil microbial community structure", "Microbiology", "Mathematical analysis", "Environmental science", "Agricultural and Biological Sciences", "Meteorology", "11. Sustainability", "FOS: Mathematics", "Genetics", "Climate change", "alpine grassland", "Biology", "Ecosystem", "2. Zero hunger", "Plateau (mathematics)", "Ecology", "Geography", "Bacteria", "Global warming", "Marine Microbial Diversity and Biogeography", "Life Sciences", "Microbial Diversity in Antarctic Ecosystems", "15. Life on land", "Grassland", "Community structure", "climate change", "pyrosequencing", "13. Climate action", "FOS: Biological sciences", "Environmental Science", "Physical Sciences", "soil moisture", "Soil Carbon Dynamics and Nutrient Cycling in Ecosystems", "Mathematics"]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2016.01032"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Frontiers%20in%20Microbiology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3389/fmicb.2016.01032", "name": "item", "description": "10.3389/fmicb.2016.01032", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2016.01032"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2016-06-30T00:00:00Z"}}, {"id": "10.1371/journal.pone.0038858", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:20:14Z", "type": "Journal Article", "created": "2012-06-11", "title": "Decline In Topsoil Microbial Quotient, Fungal Abundance And C Utilization Efficiency Of Rice Paddies Under Heavy Metal Pollution Across South China", "description": "Open AccessLos suelos agr\u00edcolas han estado cada vez m\u00e1s sujetos a la contaminaci\u00f3n por metales pesados en todo el mundo. Sin embargo, los impactos en la estructura y actividad de la comunidad microbiana del suelo de los suelos de campo a\u00fan no se han caracterizado bien. En 2009 se recolectaron muestras de tierra vegetal de campos de arroz contaminados con metales pesados (PS) y sus campos de fondo (BGS) en cuatro sitios del sur de China. Los cambios con la contaminaci\u00f3n met\u00e1lica en relaci\u00f3n con el BGS en el tama\u00f1o y la estructura de la comunidad de los microorganismos del suelo se examinaron con m\u00faltiples ensayos microbiol\u00f3gicos de medici\u00f3n de carbono de biomasa (MBC) y nitr\u00f3geno (MBN), recuento en placa de colonias cultivables y an\u00e1lisis de \u00e1cidos grasos fosfol\u00edpidos (PLFA) junto con el perfil de electroforesis en gel de gradiente desnaturalizante (DGGE) del gen de ARNr 16S y ARNr 18S y ensayo de PCR en tiempo real. Adem\u00e1s, se llev\u00f3 a cabo una incubaci\u00f3n de laboratorio de 7 d\u00edas a una temperatura constante de 25 \u00b0C para realizar un seguimiento adicional de los cambios en la actividad metab\u00f3lica. Si bien la disminuci\u00f3n de la contaminaci\u00f3n por metales en MBC y MBN, as\u00ed como en el tama\u00f1o de la poblaci\u00f3n cultivable, el contenido total de PLFA y el n\u00famero de bandas DGGE de bacterias no se observaron de manera significativa y consistente, de hecho se observ\u00f3 una reducci\u00f3n significativa de la contaminaci\u00f3n por metales en el cociente microbiano, en el tama\u00f1o de la poblaci\u00f3n f\u00fangica cultivable y en la proporci\u00f3n de PLFA f\u00fangicos a bacterianos de manera consistente en todos los sitios en una medida que var\u00eda de 6% a 74%. Adem\u00e1s, se observ\u00f3 un aumento consistentemente significativo en el cociente metab\u00f3lico de hasta un 68% bajo contaminaci\u00f3n en todos los sitios. Estas observaciones apoyaron un cambio de la comunidad microbiana con disminuci\u00f3n en su abundancia, disminuci\u00f3n en la proporci\u00f3n de hongos y, por lo tanto, en la eficiencia de utilizaci\u00f3n de C bajo contaminaci\u00f3n en los suelos. Adem\u00e1s, las proporciones de cociente microbiano, de hongos a bacterias y qCO2 son mejores indicativas de los impactos de los metales pesados en la estructura y actividad de la comunidad microbiana. Los efectos potenciales de estos cambios en el ciclo del carbono y la producci\u00f3n de CO2 en los arrozales contaminados merecen m\u00e1s estudios de campo.", "keywords": ["Microbial population biology", "Colony Count", " Microbial", "Agricultural and Biological Sciences", "Sociology", "Soil water", "Soil Pollutants", "Soil Microbiology", "2. Zero hunger", "Principal Component Analysis", "Temperature gradient gel electrophoresis", "Ecology", "Q", "Fatty Acids", "R", "Life Sciences", "Agriculture", "04 agricultural and veterinary sciences", "Biota", "Pollution", "6. Clean water", "FOS: Sociology", "Chemistry", "Physical Sciences", "Environmental chemistry", "Medicine", "Research Article", "Environmental Monitoring", "16S ribosomal RNA", "China", "Microorganism", "Environmental Impact of Heavy Metal Contamination", "Nitrogen", "Science", "Population", "Soil Science", "Real-Time Polymerase Chain Reaction", "Environmental science", "Microbial Ecology", "12. Responsible consumption", "Metals", " Heavy", "Genetics", "Biology", "Demography", "Bacteria", "Denaturing Gradient Gel Electrophoresis", "Marine Microbial Diversity and Biogeography", "Oryza", "15. Life on land", "Topsoil", "Carbon", "Agronomy", "RNA", " Ribosomal", "13. Climate action", "FOS: Biological sciences", "Environmental Science", "0401 agriculture", " forestry", " and fisheries", "Soil Carbon Dynamics and Nutrient Cycling in Ecosystems"]}, "links": [{"href": "https://doi.org/10.1371/journal.pone.0038858"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PLoS%20ONE", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1371/journal.pone.0038858", "name": "item", "description": "10.1371/journal.pone.0038858", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1371/journal.pone.0038858"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2012-06-11T00:00:00Z"}}, {"id": "10.3389/fmicb.2019.00697", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:21:31Z", "type": "Journal Article", "created": "2019-04-09", "title": "Taxonomic and Functional Characterization of the Microbial Community During Spontaneous in vitro Fermentation of Riesling Must", "description": "Although there is an extensive tradition of research into the microbes that underlie the winemaking process, much remains to be learnt. We combined the high-throughput sequencing (HTS) tools of metabarcoding and metagenomics, to characterize how microbial communities of Riesling musts sampled at four different vineyards, and their subsequent spontaneously fermented derivatives, vary. We specifically explored community variation relating to three points: (i) how microbial communities vary by vineyard; (ii) how community biodiversity changes during alcoholic fermentation; and (iii) how microbial community varies between musts that successfully complete alcoholic fermentation and those that become 'stuck' in the process. Our metabarcoding data showed a general influence of microbial composition at the vineyard level. Two of the vineyards (4 and 5) had strikingly a change in the differential abundance of Metschnikowia. We therefore additionally performed shotgun metagenomic sequencing on a subset of the samples to provide preliminary insights into the potential relevance of this observation, and used the data to both investigate functional potential and reconstruct draft genomes (bins). At these two vineyards, we also observed an increase in non-Saccharomycetaceae fungal functions, and a decrease in bacterial functions during the early fermentation stage. The binning results yielded 11 coherent bins, with both vineyards sharing the yeast bins Hanseniaspora and Saccharomyces. Read recruitment and functional analysis of this data revealed that during fermentation, a high abundance of Metschnikowia might serve as a biocontrol agent against bacteria, via a putative iron depletion pathway, and this in turn could help Saccharomyces dominate the fermentation. During alcoholic fermentation, we observed a general decrease in biodiversity in both the metabarcoding and metagenomic data. Unexpected Micrococcus behavior was observed in vineyard 4 according to metagenomic analyses based on reference-based read mapping. Analysis of open reading frames using these data showed an increase of functions assigned to class Actinobacteria in the end of fermentation. Therefore, we hypothesize that bacteria might sit-and-wait until Saccharomyces activity slows down. Complementary approaches to annotation instead of relying a single database provide more coherent information true species. Lastly, our metabarcoding data enabled us to identify a relationship between stuck fermentations and Starmerella abundance. Given that robust chemical analysis indicated that although the stuck samples contained residual glucose, all fructose had been consumed, we hypothesize that this was because fructophilic Starmerella, rather than Saccharomyces, dominated these fermentations. Overall, our results showcase the different ways in which metagenomic analyses can improve our understanding of the wine alcoholic fermentation process.", "keywords": ["2. Zero hunger", "0301 basic medicine", "Microbial diversity", "0303 health sciences", "Wine", "15. Life on land", "shotgun sequencing", "Microbiology", "Shotgun sequencing", "QR1-502", "03 medical and health sciences", "alcoholic fermentation", "microbial diversity", "metabarcoding", "Metabarcoding", "Alcoholic fermentation", "wine", "SDG 2 - Zero Hunger"]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2019.00697"}, {"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.2019.00697", "name": "item", "description": "10.3389/fmicb.2019.00697", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2019.00697"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-04-09T00:00:00Z"}}, {"id": "10.1371/journal.pone.0092985", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:20:15Z", "type": "Journal Article", "created": "2014-03-25", "title": "Comparison Of Seasonal Soil Microbial Process In Snow-Covered Temperate Ecosystems Of Northern China", "description": "Open AccessMore than half of the earth's terrestrial surface currently experiences seasonal snow cover and soil frost. Winter compositional and functional investigations in soil microbial community are frequently conducted in alpine tundra and boreal forest ecosystems. However, little information on winter microbial biogeochemistry is known from seasonally snow-covered temperate ecosystems. As decomposer microbes may differ in their ability/strategy to efficiently use soil organic carbon (SOC) within different phases of the year, understanding seasonal microbial process will increase our knowledge of biogeochemical cycling from the aspect of decomposition rates and corresponding nutrient dynamics. In this study, we measured soil microbial biomass, community composition and potential SOC mineralization rates in winter and summer, from six temperate ecosystems in northern China. Our results showed a clear pattern of increased microbial biomass C to nitrogen (N) ratio in most winter soils. Concurrently, a shift in soil microbial community composition occurred with higher fungal to bacterial biomass ratio and gram negative (G-) to gram positive (G+) bacterial biomass ratio in winter than in summer. Furthermore, potential SOC mineralization rate was higher in winter than in summer. Our study demonstrated a distinct transition of microbial community structure and function from winter to summer in temperate snow-covered ecosystems. Microbial N immobilization in winter may not be the major contributor for plant growth in the following spring.", "keywords": ["Biomass (ecology)", "Atmospheric Science", "Microbial population biology", "Decomposer", "Nutrient cycle", "Physical Phenomena", "Agricultural and Biological Sciences", "Soil", "Terrestrial ecosystem", "Snow", "Soil water", "Biomass", "Phospholipids", "Soil Microbiology", "Minerals", "Glucan 1", "4-beta-Glucosidase", "Ecology", "Geography", "Mineralization (soil science)", "Q", "R", "Life Sciences", "04 agricultural and veterinary sciences", "Biogeochemistry", "16. Peace & justice", "Earth and Planetary Sciences", "Physical Sciences", "Medicine", "Seasons", "Ecosystem Functioning", "Research Article", "China", "Nitrogen", "Science", "Soil Science", "Biogeochemical cycle", "Environmental science", "Meteorology", "Genetics", "Arctic Permafrost Dynamics and Climate Change", "Tundra", "Biology", "Ecosystem", "Soil science", "Bacteria", "Fungi", "Microbial Diversity in Antarctic Ecosystems", "15. Life on land", "Carbon", "Temperate climate", "13. Climate action", "FOS: Biological sciences", "Environmental Science", "0401 agriculture", " forestry", " and fisheries", "Soil Carbon Dynamics and Nutrient Cycling in Ecosystems"], "contacts": [{"organization": "Xinyue Zhang, Wei Wang, Weile Chen, Naili Zhang, Hui Zeng,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1371/journal.pone.0092985"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PLoS%20ONE", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1371/journal.pone.0092985", "name": "item", "description": "10.1371/journal.pone.0092985", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1371/journal.pone.0092985"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2014-03-25T00:00:00Z"}}, {"id": "10.20944/preprints202106.0434.v1", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:20:46Z", "type": "Journal Article", "created": "2021-06-16", "title": "Going beyond Soil Conservation with the Use of Cover Crops in Mediterranean Sloping Olive Orchards", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Among the agricultural practices promoted by the Common Agricultural Policy to increase soil functions, the use of cover crops is a recommended tool to improve the sustainability of Mediter-ranean woody crops such as olive orchards. However, there is a broad range of cover crop ty-pologies in relation to its implementation, control and species composition. In that sense, the in-fluence of different plant species on soil quality indicators in olive orchards remains unknown yet. This study describes the effects of four treatments based on the implementation of different ground covers (CC-NAT, CC-GRA and CC-MIX) and conventional tillage (TILL) on soil erosion, soil physicochemical and biological properties, and soil microbial communities after 8 years of cover crop establishment. Our results have demonstrated that the presence of a temporary cover crop (CC), compared to a soil under tillage (TILL), can reduce soil losses and maintain good soil physicochemical properties and modify greatly the structure and diversity of soil bacterial com-munities and its functioning. The presence of a homogeneous CC of gramineous (Lolium rigidum or Lolilum multiflorum) (CC-GR) for 8 years significantly increased the functional properties of the soil as compared to TILL; although the most significant change was a modification on the bacte-rial community composition that was clearly different from the rest of treatments. On the other hand, the use of a mixture of plant species (CC-MIX) as a CC for only two years although did not modify greatly the structure and diversity of soil bacterial communities compared to the TILL soil, induced significant changes on the functional properties of the soil, and reverted those properties to a level similar to that of an undisturbed soil that had maintained a natural cover of spontaneous vegetation for decades (CC-NAT).</p></article>", "keywords": ["0301 basic medicine", "2. Zero hunger", "Microbial diversity", "soil erosion", "S", "Agriculture", "04 agricultural and veterinary sciences", "metabolic activity", "15. Life on land", "Soil quality", "6. Clean water", "bacterial community composition", "03 medical and health sciences", "13. Climate action", "microbial diversity", "Bacterial community composition", "Metabolic activity", "11. Sustainability", "Soil erosion", "biochemistry", "0401 agriculture", " forestry", " and fisheries", "soil quality"]}, "links": [{"href": "http://www.mdpi.com/2073-4395/11/7/1387/pdf"}, {"href": "https://www.mdpi.com/2073-4395/11/7/1387/pdf"}, {"href": "https://doi.org/10.20944/preprints202106.0434.v1"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Agronomy", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.20944/preprints202106.0434.v1", "name": "item", "description": "10.20944/preprints202106.0434.v1", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.20944/preprints202106.0434.v1"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-06-16T00:00:00Z"}}, {"id": "10.3390/agronomy11071387", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:21:38Z", "type": "Journal Article", "created": "2021-06-16", "title": "Going beyond Soil Conservation with the Use of Cover Crops in Mediterranean Sloping Olive Orchards", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Among the agricultural practices promoted by the Common Agricultural Policy to increase soil functions, the use of cover crops is a recommended tool to improve the sustainability of Mediter-ranean woody crops such as olive orchards. However, there is a broad range of cover crop ty-pologies in relation to its implementation, control and species composition. In that sense, the in-fluence of different plant species on soil quality indicators in olive orchards remains unknown yet. This study describes the effects of four treatments based on the implementation of different ground covers (CC-NAT, CC-GRA and CC-MIX) and conventional tillage (TILL) on soil erosion, soil physicochemical and biological properties, and soil microbial communities after 8 years of cover crop establishment. Our results have demonstrated that the presence of a temporary cover crop (CC), compared to a soil under tillage (TILL), can reduce soil losses and maintain good soil physicochemical properties and modify greatly the structure and diversity of soil bacterial com-munities and its functioning. The presence of a homogeneous CC of gramineous (Lolium rigidum or Lolilum multiflorum) (CC-GR) for 8 years significantly increased the functional properties of the soil as compared to TILL; although the most significant change was a modification on the bacte-rial community composition that was clearly different from the rest of treatments. On the other hand, the use of a mixture of plant species (CC-MIX) as a CC for only two years although did not modify greatly the structure and diversity of soil bacterial communities compared to the TILL soil, induced significant changes on the functional properties of the soil, and reverted those properties to a level similar to that of an undisturbed soil that had maintained a natural cover of spontaneous vegetation for decades (CC-NAT).</p></article>", "keywords": ["2. Zero hunger", "0301 basic medicine", "Microbial diversity", "soil erosion", "S", "Agriculture", "04 agricultural and veterinary sciences", "metabolic activity", "15. Life on land", "Soil quality", "6. Clean water", "bacterial community composition", "03 medical and health sciences", "13. Climate action", "microbial diversity", "Bacterial community composition", "Metabolic activity", "11. Sustainability", "Soil erosion", "biochemistry", "0401 agriculture", " forestry", " and fisheries", "soil quality"]}, "links": [{"href": "http://www.mdpi.com/2073-4395/11/7/1387/pdf"}, {"href": "https://www.mdpi.com/2073-4395/11/7/1387/pdf"}, {"href": "https://doi.org/10.3390/agronomy11071387"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Agronomy", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/agronomy11071387", "name": "item", "description": "10.3390/agronomy11071387", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/agronomy11071387"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-06-16T00:00:00Z"}}, {"id": "10.3389/fmicb.2021.650610", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:21:32Z", "type": "Journal Article", "created": "2021-04-08", "title": "Microbiome Modulation\u2014Toward a Better Understanding of Plant Microbiome Response to Microbial Inoculants", "description": "<p>Plant-associated microorganisms are involved in important functions related to growth, performance and health of their hosts. Understanding their modes of action is important for the design of promising microbial inoculants for sustainable agriculture. Plant-associated microorganisms are able to interact with their hosts and often exert specific functions toward potential pathogens; the underlying in vitro interactions are well studied. In contrast, in situ effects of inoculants, and especially their impact on the plant indigenous microbiome was mostly neglected so far. Recently, microbiome research has revolutionized our understanding of plants as coevolved holobionts but also of indigenous microbiome-inoculant interactions. Here we disentangle the effects of microbial inoculants on the indigenous plant microbiome and point out the following types of plant microbiome modulations: (i) transient microbiome shifts, (ii) stabilization or increase of microbial diversity, (iii) stabilization or increase of plant microbiome evenness, (iv) restoration of a dysbiosis/compensation or reduction of a pathogen-induced shift, (v) targeted shifts toward plant beneficial members of the indigenous microbiota, and (vi) suppression of potential pathogens. Therefore, we suggest microbiome modulations as novel and efficient mode of action for microbial inoculants that can also be mediated via the plant.</p", "keywords": ["2. Zero hunger", "0301 basic medicine", "0303 health sciences", "03 medical and health sciences", "mode of action", "microbial diversity", "microbiome shift", "healthy plant microbiome", "15. Life on land", "Microbiology", "QR1-502", "holobiont", "12. Responsible consumption"]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2021.650610"}, {"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.2021.650610", "name": "item", "description": "10.3389/fmicb.2021.650610", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2021.650610"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-04-08T00:00:00Z"}}, {"id": "10.34894/NPT2CF", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:21:58Z", "type": "Dataset", "title": "Data: Geochemical, sedimentological and microbial diversity in two thermokarst lakes of Far Eastern Siberia", "description": "The data set includes the results of biogeochemical and sedimentary analyses on 4 sediment cores (69.5 cm - 113 cm) from two thermokarst lakes in Far East Siberia near the town of Chokurdakh. The analysis include lake depth measurements, linescan imaging, XRF scans, grainsize distribution, loss-on-ignition, porewater content, magnetic susceptibility, dissolved organic carbon (DOC) concentration, sediment density, stable carbon isotope measurements of DOC and soil organic carbon and radiocarbon ages.", "keywords": ["Earth and Environmental Science", "Yedoma", "Arctic permafrost", "Thermokarst lakes; Far East Siberia; Arctic permafrost; Yedoma; SOC; Microbial Diversity", "Earth and Environmental Sciences", "Far East Siberia", "Thermokarst lakes", "SOC", "15. Life on land", "Environmental Research", "Natural Sciences", "Geosciences", "Microbial Diversity"], "contacts": [{"organization": "Meisel, Ove H., Rijkers, Ruud, Dean, Joshua F., In 'T Zandt, Michiel H., Van Huissteden, Ko, Maximov, Trofim C., Karsanaev, Sergey V., Marchesini Belelli, Luca, Goovaerts, Arne, Wacker, Lukas, Reichart, Gert-Jan, Bouillon, Steven, Welte, Cornelia U., Jetten, Mike S. M., Vonk, Jorien E., Dolman, Han,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.34894/NPT2CF"}, {"rel": "self", "type": "application/geo+json", "title": "10.34894/NPT2CF", "name": "item", "description": "10.34894/NPT2CF", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.34894/NPT2CF"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-01-01T00:00:00Z"}}, {"id": "10.4067/s0718-58392014000300012", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:22:04Z", "type": "Journal Article", "created": "2014-07-30", "description": "Fertilization is an important agricultural practice for increasing crop yields and influencing soil properties. A field experiment was conducted in the period of 2006-2011 in southeastern China, to investigate the effects of fertilization regimes on tea (Camellia sinensis [L.] Kuntze) yields, soil chemical properties, and soil bacterial and fungal communities. The field experiment included six treatments: (1) unfertilized control (CON); (2) chemical fertilizers (NPK); (3) half-chemical fertilizers plus half-organic manure (1/2NPKOM); (4) organic manure fertilizers (OM); (5) half-chemical fertilizers plus half-organic manure plus legume stover returned (1/2NPKOM+L), and (6) chemical fertilizers plus legume stover returned (NPKL). Results showed that, compared to the control, NPK treatment showed no significant effect on soil organic matter (SOM), total N (TN), total P (TP), total K (TK), available N (AN), available K (AK) and tea yields, but showed the lowest bacterial Shannon index of 1.714 and the lowest value of 2.002 for fungal Shannon index. Organic manure treatment had the richest diversity of soil bacterial community with Shannon index of 2.542, and the highest levels of soil essential nutrients, including SOM (30.03%), TN (2.90 g kg-1), TP (1.35 g kg-1), AN (245.30 mg kg-1), AP (57.00 mg kg-1), and AK (271.80 mg kg-1), followed by 1/2NPKOM+L, which appeared the maximal tea yields of 6772 kg ha-1. Organic manure amendment was a key factor in determining soil properties and productivity. Base on soil quality and tea yields, both OM and 1/2NPKOM+L treatments were recommended as better choices of fertilization practices for tea soils in southeastern China. These findings provided a better understanding of the importance of fertilizations in promoting soil fertility, crop yields, and altering soil microbial diversity, leading to selection of scientific fertilization practices for sustainable development of agroecosystems.", "keywords": ["2. Zero hunger", "soil chemical properties", "tea yields", "fertilization", "soil microbial diversity", "", "0401 agriculture", " forestry", " and fisheries", "04 agricultural and veterinary sciences", "15. Life on land", "Camellia sinensis", "6. Clean water"], "contacts": [{"organization": "Qiu, Shan-Lian, Wang, Li-Min, Huang, Dong-Feng, Lin, Xin-Jian,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.4067/s0718-58392014000300012"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Chilean%20journal%20of%20agricultural%20research", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.4067/s0718-58392014000300012", "name": "item", "description": "10.4067/s0718-58392014000300012", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.4067/s0718-58392014000300012"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2014-09-01T00:00:00Z"}}, {"id": "10.5061/dryad.7d5g4", "type": "Feature", "geometry": null, "properties": {"license": "unspecified", "updated": "2026-06-23T16:22:13Z", "type": "Dataset", "title": "Data from: Agricultural intensification and the functional capacity of soil microbes on smallholder African farms", "description": "unspecified1. Fertilization may impact ecosystem processes that sustain agriculture,  such as nutrient cycling, by altering the composition of soil microbial  communities that regulate such processes. These processes are crucial to  low-input, smallholder tropical agriculture, which supports 900 million of  the world's poorest people. Yet little is known about how efforts to  increase crop yield on such farms will affect the capacity of soil  microbial communities to carry out ecosystem processes. 2. We studied the  diversity and functional capacity of microbial communities on smallholder  farms in western Kenya. We measured functional capacity as the abundance  of functional genes involved in several components of nutrient cycling as  well as catabolism of multiple carbon substrates; taxonomic diversity was  measured using metagenomic sequencing. Diversity and functional capacity  were measured on short-term, experimental mineral fertilizer addition  plots and on actively managed farms that have maintained for at least  seven years a management strategy of low mineral fertilization, high  mineral fertilization, or high fertilization combined with legume  rotations. 3. Soil bacterial diversity decreased with mineral fertilizer  addition, with a community shift towards taxa that thrive in high-resource  conditions. This taxonomic response did not correspond with decreased  microbial functional capacity. Instead, functional capacity was increased,  along with yields, when fertilizers were combined with legume rotations  that add organic matter to soil. 4. Policy implications. Mineral  fertilizer use is associated with lower soil microbial diversity on  smallholder farms, but not associated with changes in microbial functional  capacity. Functional capacity is highest, along with yields, when mineral  fertilizers are paired with legume rotations. Our findings suggest that  this type of agroforestry can be an important strategy for maintaining the  long-term functional capacity of soil microbes as well as increasing crop  yields on smallholder farms. These observations support proposals to  achieve long-term food production targets in sub-Saharan Africa by  combining mineral fertilizers with organic inputs.", "keywords": ["2. Zero hunger", "microbial diversity", "GeoChip", "15. Life on land", "Smallholder agriculture", "African Green Revolution", "fertilisation"], "contacts": [{"organization": "Wood, Stephen A., Bradford, Mark A., Gilbert, Jack A., McGuire, Krista L., Palm, Cheryl A., Tully, Katherine L., Zhou, Jizhong, Naeem, Shahid,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5061/dryad.7d5g4"}, {"rel": "self", "type": "application/geo+json", "title": "10.5061/dryad.7d5g4", "name": "item", "description": "10.5061/dryad.7d5g4", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5061/dryad.7d5g4"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2016-02-13T00:00:00Z"}}, {"id": "2944126466", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:27:00Z", "type": "Journal Article", "created": "2019-05-12", "title": "Losses in microbial functional diversity reduce the rate of key soil processes", "description": "Open AccessThis work was financially supported by the Australian Research Council (DP 170104634 and DP190103714) and Western Sydney University. We gratefully acknowledge Dr. Jasmine Grinyer for her assistance during experimental setup and providing comments to improve the quality of this manuscript. M. D-B. acknowledges support from the Marie Sklodowska-Curie Actions of the Horizon 2020 Framework Programme H2020-MSCA-IF-2016 under REA grant agreement n\u00b0 702057.", "keywords": ["Functional redundancy", "microbial diversity", "XXXXXX - Unknown", "nutrient cycles", "Microbial functional diversity", "15. Life on land", "ecosystems", "Specialized ecosystem functions", "soils", "Nutrient cycling"]}, "links": [{"href": "https://doi.org/2944126466"}, {"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": "2944126466", "name": "item", "description": "2944126466", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/2944126466"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-08-01T00:00:00Z"}}, {"id": "10451/51021", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:25:49Z", "type": "Journal Article", "created": "2019-03-01", "title": "Arbuscular mycorrhizal fungi in soil, roots and rhizosphere ofMedicago truncatula: diversity and heterogeneity under semi-arid conditions", "description": "<p>Mycorrhizal symbioses are considered indicators of ecosystem biodiversity. However, their diversity and relevance in arid and semi-arid ecosystems are poorly understood. This study addressed this subject, the main objective being to evaluate arbuscular mycorrhizal fungi (AMF) diversity and heterogeneity in a semi-arid region. Samples of bulk and rhizosphere soil and fine roots ofMedicago truncatulawere collected at four different sites with the same aridity index (6.1), in Bou-Hedma National Park, Tunisia, a semi-arid ecosystem. AMF taxa were assessed by 454- pyrosequencing and identified by BLAST matching of operational taxonomic units (OTUs) against the MaarjAMdatabase, targeting AMF SSUrRNAgene diversity. Roots were the hotspots of AMF diversity (107 OTUs out of a total of 138). Of the 138 OTUs, 113 found correspondence in the MaarjAMdatabase, with 32 AMF virtual taxa (VTX),19 Site-exclusive (SE) and 13 common to at least two sites (Non-site exclusive, NSE); the remaining 25 OTUs grouped in 16 putative new AMF taxa (pNTX), each one consisting of OTUs sharing pairwise distances not higher than 3%. We found a high diversity and heterogeneity of AMF across the four sites, which showed, in a regression analysis, significant relation to six out of the eight environmental parameters evaluated: grazing activity and soil texture, electrical conductivity, organic matter, total phosphorus and total nitrogen. AMF colonization of plants also presented significant differences among the four sites, as well as spore density, microbial biomass and several enzymatic activities (dehydrogenase, \uffce\uffb2-glucosidase and phosphatase) evaluated in rhizosphere soils. The four sites clustered in two groups in a hierarchical clustering evaluation based on their AMF diversity (total numbers of OTU, VTX and pNTX) and the parameters referred above. The crucial role of abiotic factors, other than aridity index, on AMF community composition, was evidenced by the high heterogeneity found between AMF communities across sites under identical aridity conditions.</p", "keywords": ["0301 basic medicine", "2. Zero hunger", "Microbial diversity", "0303 health sciences", "QH301-705.5", "R", "Pyrosequencing", "Biodiversity", "15. Life on land", "03 medical and health sciences", "AMF", "Medicine", "Soil heterogeneity", "Heterogeneity", "Biology (General)"]}, "links": [{"href": "https://repositorio.ulisboa.pt/bitstream/10451/51021/1/Mahmoudi%20et%20al%202019.pdf"}, {"href": "https://peerj.com/articles/6401.pdf"}, {"href": "https://doi.org/10451/51021"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PeerJ", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10451/51021", "name": "item", "description": "10451/51021", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10451/51021"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-03-01T00:00:00Z"}}, {"id": "10.7717/peerj.6401", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:25:28Z", "type": "Journal Article", "created": "2019-03-01", "title": "Arbuscular mycorrhizal fungi in soil, roots and rhizosphere ofMedicago truncatula: diversity and heterogeneity under semi-arid conditions", "description": "<p>Mycorrhizal symbioses are considered indicators of ecosystem biodiversity. However, their diversity and relevance in arid and semi-arid ecosystems are poorly understood. This study addressed this subject, the main objective being to evaluate arbuscular mycorrhizal fungi (AMF) diversity and heterogeneity in a semi-arid region. Samples of bulk and rhizosphere soil and fine roots ofMedicago truncatulawere collected at four different sites with the same aridity index (6.1), in Bou-Hedma National Park, Tunisia, a semi-arid ecosystem. AMF taxa were assessed by 454- pyrosequencing and identified by BLAST matching of operational taxonomic units (OTUs) against the MaarjAMdatabase, targeting AMF SSUrRNAgene diversity. Roots were the hotspots of AMF diversity (107 OTUs out of a total of 138). Of the 138 OTUs, 113 found correspondence in the MaarjAMdatabase, with 32 AMF virtual taxa (VTX),19 Site-exclusive (SE) and 13 common to at least two sites (Non-site exclusive, NSE); the remaining 25 OTUs grouped in 16 putative new AMF taxa (pNTX), each one consisting of OTUs sharing pairwise distances not higher than 3%. We found a high diversity and heterogeneity of AMF across the four sites, which showed, in a regression analysis, significant relation to six out of the eight environmental parameters evaluated: grazing activity and soil texture, electrical conductivity, organic matter, total phosphorus and total nitrogen. AMF colonization of plants also presented significant differences among the four sites, as well as spore density, microbial biomass and several enzymatic activities (dehydrogenase, \uffce\uffb2-glucosidase and phosphatase) evaluated in rhizosphere soils. The four sites clustered in two groups in a hierarchical clustering evaluation based on their AMF diversity (total numbers of OTU, VTX and pNTX) and the parameters referred above. The crucial role of abiotic factors, other than aridity index, on AMF community composition, was evidenced by the high heterogeneity found between AMF communities across sites under identical aridity conditions.</p", "keywords": ["0301 basic medicine", "2. Zero hunger", "Microbial diversity", "0303 health sciences", "QH301-705.5", "R", "Pyrosequencing", "Biodiversity", "15. Life on land", "03 medical and health sciences", "AMF", "Medicine", "Soil heterogeneity", "Heterogeneity", "Biology (General)"]}, "links": [{"href": "https://peerj.com/articles/6401.pdf"}, {"href": "https://doi.org/10.7717/peerj.6401"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PeerJ", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.7717/peerj.6401", "name": "item", "description": "10.7717/peerj.6401", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.7717/peerj.6401"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-03-01T00:00:00Z"}}, {"id": "10261/336421", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:25:41Z", "type": "Journal Article", "created": "2019-05-12", "title": "Losses in microbial functional diversity reduce the rate of key soil processes", "description": "Open AccessThis work was financially supported by the Australian Research Council (DP 170104634 and DP190103714) and Western Sydney University. We gratefully acknowledge Dr. Jasmine Grinyer for her assistance during experimental setup and providing comments to improve the quality of this manuscript. M. D-B. acknowledges support from the Marie Sklodowska-Curie Actions of the Horizon 2020 Framework Programme H2020-MSCA-IF-2016 under REA grant agreement n\u00b0 702057.", "keywords": ["Functional redundancy", "microbial diversity", "XXXXXX - Unknown", "nutrient cycles", "Microbial functional diversity", "15. Life on land", "ecosystems", "Specialized ecosystem functions", "soils", "Nutrient cycling"]}, "links": [{"href": "https://doi.org/10261/336421"}, {"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": "10261/336421", "name": "item", "description": "10261/336421", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10261/336421"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-08-01T00:00:00Z"}}, {"id": "10261/399173", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:25:45Z", "type": "Journal Article", "created": "2024-11-09", "title": "Unravelling the Plastisphere-Soil and Plasticplane Microbiome of Plastic Mulch Residues in Agricultural Soils", "description": "Open AccessPeer reviewed", "keywords": ["570", "Microbial diversity", "Soil health", "Plastisphere", "Core bacteria", "630", "Environmental pollution", "Agricultural fields"]}, "links": [{"href": "https://eprints.lancs.ac.uk/id/eprint/228110/1/APSOIL-D-24-02313_R1_1_.pdf"}, {"href": "https://doi.org/10261/399173"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Soil%20Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10261/399173", "name": "item", "description": "10261/399173", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10261/399173"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-01-01T00:00:00Z"}}, {"id": "11585/996222", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:26:04Z", "type": "Journal Article", "created": "2021-07-10", "title": "A critical perspective on interpreting amplicon sequencing data in soil ecological research", "description": "Abstract   Microbial community analysis via marker gene amplicon sequencing has become a routine method in the field of soil research. In this perspective, we discuss technical challenges and limitations of amplicon sequencing and present statistical and experimental approaches that can help addressing the spatio-temporal complexity of soil and the high diversity of organisms therein. We illustrate the impact of compositionality on the interpretation of relative abundance data and discuss effects of sample replication on the statistical power in soil community analysis. Additionally, we argue for the need of increased study reproducibility and data availability, as well as complementary techniques for generating deeper ecological insights into microbial roles and our understanding thereof in soil ecosystems. At this stage, we call upon researchers and specialized soil journals to consider the current state of data analysis, interpretation, and availability to improve the rigor of future studies.", "keywords": ["0301 basic medicine", "2. Zero hunger", "Soil microbial diversity", "0303 health sciences", "Soil metabarcoding", "DIVERSITY", "Ecology; Soil microbes; Amplicon sequencing", "Compositional data", "SCALE SPATIAL HETEROGENEITY", "15. Life on land", "BIOMASS", "03 medical and health sciences", "106026 \u00d6kosystemforschung", "Soil complexity", "CARBON-USE EFFICIENCY", "BACTERIA", "DNA EXTRACTION", "MICROORGANISMS", "MICROBIAL COMMUNITIES", "106026 Ecosystem research", "RIBOSOMAL-RNA", "Amplicon sequencing", "Soil microorganisms", "GENERATION"]}, "links": [{"href": "https://doi.org/11585/996222"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Soil%20Biology%20and%20Biochemistry", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "11585/996222", "name": "item", "description": "11585/996222", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/11585/996222"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-09-01T00:00:00Z"}}, {"id": "1959.4/unsworks_64940", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:26:18Z", "type": "Journal Article", "created": "2019-08-02", "title": "Global ecological predictors of the soil priming effect", "description": "Abstract<p>Identifying the global drivers of soil priming is essential to understanding C cycling in terrestrial ecosystems. We conducted a survey of soils across 86 globally-distributed locations, spanning a wide range of climates, biotic communities, and soil conditions, and evaluated the apparent soil priming effect using13C-glucose labeling. Here we show that the magnitude of the positive apparent priming effect (increase in CO2release through accelerated microbial biomass turnover) was negatively associated with SOC content and microbial respiration rates. Our statistical modeling suggests that apparent priming effects tend to be negative in more mesic sites associated with higher SOC contents. In contrast, a single-input of labile C causes positive apparent priming effects in more arid locations with low SOC contents. Our results provide solid evidence that SOC content plays a critical role in regulating apparent priming effects, with important implications for the improvement of C cycling models under global change scenarios.</p", "keywords": ["DECOMPOSITION", "550", "Science", "ECOSYSTEM MULTIFUNCTIONALITY", "Veterinary and Food Sciences", "41 Environmental Sciences", "anzsrc-for: 3007 Forestry Sciences", "30 Agricultural", "01 natural sciences", "630", "Article", "anzsrc-for: 41 Environmental Sciences", "anzsrc-for: 30 Agricultural", "XXXXXX - Unknown", "4101 Climate Change Impacts and Adaptation", "anzsrc-for: 31 Biological Sciences", "0105 earth and related environmental sciences", "2. Zero hunger", "Q", "CARBON USE EFFICIENCY", "3007 Forestry Sciences", "04 agricultural and veterinary sciences", "15. Life on land", "MICROBIAL DIVERSITY DRIVES", "LABILE CARBON", "NITROGEN", "COMMUNITY", "CLIMATE", "anzsrc-for: 4101 Climate Change Impacts and Adaptation", "ORGANIC-MATTER", "PHOSPHORUS", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "31 Biological Sciences"]}, "links": [{"href": "https://escholarship.org/content/qt97s664fx/qt97s664fx.pdf"}, {"href": "https://escholarship.org/content/qt6239t2d4/qt6239t2d4.pdf"}, {"href": "https://eprints.ncl.ac.uk/fulltext.aspx?url=259028/2D523771-EC44-4DAA-B892-F79848785D9A.pdf&pub_id=259028"}, {"href": "https://doi.org/1959.4/unsworks_64940"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Nature%20Communications", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "1959.4/unsworks_64940", "name": "item", "description": "1959.4/unsworks_64940", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/1959.4/unsworks_64940"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-08-02T00:00:00Z"}}, {"id": "1959.7/uws:55385", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:26:18Z", "type": "Journal Article", "created": "2020-02-03", "title": "Multiple elements of soil biodiversity drive ecosystem functions across biomes", "description": "The role of soil biodiversity in regulating multiple ecosystem functions is poorly understood, limiting our ability to predict how soil biodiversity loss might affect human wellbeing and ecosystem sustainability. Here, combining a global observational study with an experimental microcosm study, we provide evidence that soil biodiversity (bacteria, fungi, protists and invertebrates) is significantly and positively associated with multiple ecosystem functions. These functions include nutrient cycling, decomposition, plant production, and reduced potential for pathogenicity and belowground biological warfare. Our findings also reveal the context dependency of such relationships and the importance of the connectedness, biodiversity and nature of the globally distributed dominant phylotypes within the soil network in maintaining multiple functions. Moreover, our results suggest that the positive association between plant diversity and multifunctionality across biomes is indirectly driven by soil biodiversity. Together, our results provide insights into the importance of soil biodiversity for maintaining soil functionality locally and across biomes, as well as providing strong support for the inclusion of soil biodiversity in conservation and management programmes.", "keywords": ["0301 basic medicine", "NETWORK ANALYSIS", "Life on Land", "STERILIZATION METHODS", "biotic communities", "CARBON", "Soil", "03 medical and health sciences", "XXXXXX - Unknown", "Humans", "soils", "Ecosystem", "Soil Microbiology", "biodiversity", "2. Zero hunger", "0303 health sciences", "SEQUENCES", "Fungi", "Biodiversity", "15. Life on land", "COMMUNITY", "13. Climate action", "BACTERIA", "MULTIFUNCTIONALITY", "ecosystems", "MICROBIAL DIVERSITY"]}, "links": [{"href": "https://escholarship.org/content/qt1938c590/qt1938c590.pdf"}, {"href": "https://doi.org/1959.7/uws:55385"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Nature%20Ecology%20%26amp%3B%20Evolution", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "1959.7/uws:55385", "name": "item", "description": "1959.7/uws:55385", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/1959.7/uws:55385"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-02-03T00:00:00Z"}}, {"id": "2164/22267", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:26:43Z", "type": "Journal Article", "created": "2023-10-09", "title": "Interactive effects of microbial functional diversity and carbon availability on decomposition \u2013 A theoretical exploration", "description": "<div><p>Microbial functional diversity in litter and soil has been hypothesized to affect the rate of decomposition of organic matter and other soil ecosystem functions. However, there are no clear theoretical expectations on how these effects might change with substrate availability, heterogeneity in the substrate chemistry, and different aspects of functional diversity itself (number of microbial groups vs. distribution of functional traits). To explore how these factors shape the decomposition-diversity relation, we carry out numerical experiments using a flexible reaction network comprising microbial processes and interactions with bioavailable carbon (extracellular degradation, uptake, respiration, growth, and mortality), and ecological processes (competition among the different groups). We also considered diverse carbon substrates, in terms of varying nominal oxidation state of carbon (NOSC). The reaction network was used to test the effects of (i) number of microbial groups, (ii) number of carbon pools, (iii) microbial functional diversity, and (iv) amount of bioavailable carbon. We found that the decomposition rate constant increases with increasing substrate concentration and heterogeneity, as well as with increasing microbial functional diversity or variance of microbial traits, albeit these biological factors are less important. The multivariate dependence of the decomposition rate constant (and other decomposition and microbial growth metrics) on substrate and microbial factors can be described using power laws with exponents lower than one, indicating that diversity effects on decomposition and microbial growth are reduced at high substrate concentration and heterogeneity, or at high microbial diversity.</p></div>", "keywords": ["Microbial model Organic matter decomposition Organic carbon oxidation state Decomposition kinetics Microbial diversity", "[SDE] Environmental Sciences", "2. Zero hunger", "Organic matter decomposition", "Supplementary Information", "GE", "Ecology", "330", "GF Human ecology. Anthropogeography", "15. Life on land", "ta4112", "GF", "6. Clean water", "12. Responsible consumption", "Ecological Modelling", "Decomposition kinetics", "13. Climate action", "Microbial functional trait", "Microbial diversity-function relation", "Microbial model", "GE Environmental Sciences", "Organic carbon oxidation state"]}, "links": [{"href": "https://doi.org/2164/22267"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecological%20Modelling", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "2164/22267", "name": "item", "description": "2164/22267", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/2164/22267"}, {"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": "3143471802", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:27:20Z", "type": "Journal Article", "created": "2021-04-08", "title": "Microbiome Modulation\u2014Toward a Better Understanding of Plant Microbiome Response to Microbial Inoculants", "description": "<p>Plant-associated microorganisms are involved in important functions related to growth, performance and health of their hosts. Understanding their modes of action is important for the design of promising microbial inoculants for sustainable agriculture. Plant-associated microorganisms are able to interact with their hosts and often exert specific functions toward potential pathogens; the underlying in vitro interactions are well studied. In contrast, in situ effects of inoculants, and especially their impact on the plant indigenous microbiome was mostly neglected so far. Recently, microbiome research has revolutionized our understanding of plants as coevolved holobionts but also of indigenous microbiome-inoculant interactions. Here we disentangle the effects of microbial inoculants on the indigenous plant microbiome and point out the following types of plant microbiome modulations: (i) transient microbiome shifts, (ii) stabilization or increase of microbial diversity, (iii) stabilization or increase of plant microbiome evenness, (iv) restoration of a dysbiosis/compensation or reduction of a pathogen-induced shift, (v) targeted shifts toward plant beneficial members of the indigenous microbiota, and (vi) suppression of potential pathogens. Therefore, we suggest microbiome modulations as novel and efficient mode of action for microbial inoculants that can also be mediated via the plant.</p", "keywords": ["0301 basic medicine", "2. Zero hunger", "0303 health sciences", "03 medical and health sciences", "mode of action", "microbial diversity", "microbiome shift", "healthy plant microbiome", "15. Life on land", "Microbiology", "QR1-502", "holobiont", "12. Responsible consumption"]}, "links": [{"href": "https://doi.org/3143471802"}, {"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": "3143471802", "name": "item", "description": "3143471802", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/3143471802"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-04-08T00:00:00Z"}}, {"id": "3177787314", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:27:22Z", "type": "Journal Article", "created": "2021-06-16", "title": "Going beyond Soil Conservation with the Use of Cover Crops in Mediterranean Sloping Olive Orchards", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Among the agricultural practices promoted by the Common Agricultural Policy to increase soil functions, the use of cover crops is a recommended tool to improve the sustainability of Mediter-ranean woody crops such as olive orchards. However, there is a broad range of cover crop ty-pologies in relation to its implementation, control and species composition. In that sense, the in-fluence of different plant species on soil quality indicators in olive orchards remains unknown yet. This study describes the effects of four treatments based on the implementation of different ground covers (CC-NAT, CC-GRA and CC-MIX) and conventional tillage (TILL) on soil erosion, soil physicochemical and biological properties, and soil microbial communities after 8 years of cover crop establishment. Our results have demonstrated that the presence of a temporary cover crop (CC), compared to a soil under tillage (TILL), can reduce soil losses and maintain good soil physicochemical properties and modify greatly the structure and diversity of soil bacterial com-munities and its functioning. The presence of a homogeneous CC of gramineous (Lolium rigidum or Lolilum multiflorum) (CC-GR) for 8 years significantly increased the functional properties of the soil as compared to TILL; although the most significant change was a modification on the bacte-rial community composition that was clearly different from the rest of treatments. On the other hand, the use of a mixture of plant species (CC-MIX) as a CC for only two years although did not modify greatly the structure and diversity of soil bacterial communities compared to the TILL soil, induced significant changes on the functional properties of the soil, and reverted those properties to a level similar to that of an undisturbed soil that had maintained a natural cover of spontaneous vegetation for decades (CC-NAT).</p></article>", "keywords": ["0301 basic medicine", "2. Zero hunger", "Microbial diversity", "soil erosion", "S", "Agriculture", "04 agricultural and veterinary sciences", "metabolic activity", "15. Life on land", "Soil quality", "6. Clean water", "bacterial community composition", "03 medical and health sciences", "13. Climate action", "microbial diversity", "Bacterial community composition", "Metabolic activity", "11. Sustainability", "Soil erosion", "biochemistry", "0401 agriculture", " forestry", " and fisheries", "soil quality"]}, "links": [{"href": "http://www.mdpi.com/2073-4395/11/7/1387/pdf"}, {"href": "https://www.mdpi.com/2073-4395/11/7/1387/pdf"}, {"href": "https://doi.org/3177787314"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Agronomy", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "3177787314", "name": "item", "description": "3177787314", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/3177787314"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-06-16T00:00:00Z"}}, {"id": "35752240", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:27:34Z", "type": "Journal Article", "created": "2022-06-22", "title": "Integrated organic and inorganic fertilization and reduced irrigation altered prokaryotic microbial community and diversity in different compartments of wheat root zone contributing to improved nitrogen uptake and wheat yield", "description": "Open AccessThe effect of long-term water and integrated fertilization on prokaryotic microorganisms and their regulation for crop nutrient uptake remains unknown. Therefore, the impact of soil water and integrated fertilization after eight years on prokaryotic microbial communities in different compartments of root zone and their association with wheat nitrogen (N) absorption and yield were investigated. The results showed that compared with fertilization treatments (F), water regimes (W) more drastically modulated the prokaryotic microbial community structure and diversity in bulk soil, rhizosphere and endosphere. The increase of irrigation improved the prokaryotic diversity in the rhizosphere and endosphere while decreased the diversity in the bulk soil. Application of organic fertilizers significantly improved soil organic matter (SOM) and nutrient contents, increased rhizosphere and endophytic prokaryotic microbial diversity, and elevated the relative abundance of aerobic ammonia oxidation and nitrification-related functional microorganisms in rhizosphere and endosphere. Increasing irrigation elevated the relative abundance of functional microorganisms related to aerobic ammonia oxidation and nitrification in the rhizosphere and endosphere. Soil water content (SWC) and NH4+-N as well as NO3\u2212-N were key predictors of prokaryotic microbial community composition under W and F treatments, respectively. Appropriate application of irrigation and organic fertilizers increased the relative abundance of some beneficial bacteria such as Flavobacterium. Water and fertilization treatments regulated the prokaryotic microbial communities of bulk soil, rhizosphere and endosphere by altering SWC and SOM, and provided evidence for the modulation of prokaryotic microorganisms to promote nitrogen uptake and wheat yield under long-term irrigation and fertilization. Conclusively, the addition of organic manure (50 %) with inorganic fertilizers (50 %) and reduced amount of irrigation (pre-sowing and jointing-period irrigation) decreased the application amount of chemical fertilizers and water, while increased SOM and nutrient content, improved prokaryotic diversity, and changed prokaryotic microbial community structure in the wheat root zone, resulting in enhanced nutrient uptake and wheat yield.", "keywords": ["0106 biological sciences", "Yield", "Microorganism", "Microbial population biology", "Nitrogen", "Soil Science", "Organic chemistry", "Plant Science", "01 natural sciences", "Environmental science", "Agricultural and Biological Sciences", "Soil", "Symbiotic Nitrogen Fixation in Legumes", "Soil water", "Genetics", "Fertilizers", "Biology", "Irrigation", "Soil Microbiology", "Triticum", "2. Zero hunger", "Soil organic matter", "Soil Fertility", "Physicochemical factors", "Ecology", "Bacteria", "Microbiota", "Marine Microbial Diversity and Biogeography", "Water", "Life Sciences", "04 agricultural and veterinary sciences", "15. Life on land", "Nitrification", "Agronomy", "6. Clean water", "Chemistry", "Human fertilization", "13. Climate action", "Fertilization", "FOS: Biological sciences", "Environmental Science", "Physical Sciences", "Rhizosphere", "Bulk soil", "0401 agriculture", " forestry", " and fisheries", "Prokaryotic microorganisms", "Endosphere", "Soil Carbon Dynamics and Nutrient Cycling in Ecosystems", "Nutrient"]}, "links": [{"href": "https://doi.org/35752240"}, {"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": "35752240", "name": "item", "description": "35752240", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/35752240"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-10-01T00:00:00Z"}}, {"id": "PMC10064710", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:29:40Z", "type": "Journal Article", "created": "2023-03-30", "title": "Abundance, classification and genetic potential of Thaumarchaeota in metagenomes of European agricultural soils: a meta-analysis", "description": "Abstract                 Background                 <p>For a sustainable production of food, research on agricultural soil microbial communities is inevitable. Due to its immense complexity, soil is still some kind of black box. Soil study designs for identifying microbiome members of relevance have various scopes and focus on particular environmental factors. To identify common features of soil microbiomes, data from multiple studies should be compiled and processed. Taxonomic compositions and functional capabilities of microbial communities associated with soils and plants have been identified and characterized in the past few decades. From a fertile Loess\uffe2\uff80\uff93Chernozem-type soil located in Germany, metagenomically assembled genomes (MAGs) classified as members of the phylum Thaumarchaeota/Thermoproteota were obtained. These possibly represent keystone agricultural soil community members encoding functions of relevance for soil fertility and plant health. Their importance for the analyzed microbiomes is corroborated by the fact that they were predicted to contribute to the cycling of nitrogen, feature the genetic potential to fix carbon dioxide and possess genes with predicted functions in plant-growth-promotion (PGP). To expand the knowledge on soil community members belonging to the phylum Thaumarchaeota, we conducted a meta-analysis integrating primary studies on European agricultural soil microbiomes.</p>                                Results                 <p>Taxonomic classification of the selected soil metagenomes revealed the shared agricultural soil core microbiome of European soils from 19 locations. Metadata reporting was heterogeneous between the different studies. According to the available metadata, we separated the data into 68 treatments. The phylum Thaumarchaeota is part of the core microbiome and represents a major constituent of the archaeal subcommunities in all European agricultural soils. At a higher taxonomic resolution, 2074 genera constituted the core microbiome. We observed that viral genera strongly contribute to variation in taxonomic profiles. By binning of metagenomically assembled contigs, Thaumarchaeota MAGs could be recovered from several European soil metagenomes. Notably, many of them were classified as members of the family Nitrososphaeraceae, highlighting the importance of this family for agricultural soils. The specific Loess-Chernozem Thaumarchaeota MAGs were most abundant in their original soil, but also seem to be of importance in other agricultural soil microbial communities. Metabolic reconstruction of Switzerland_1_MAG_2 revealed its genetic potential i.a. regarding carbon dioxide (CO$$_2$$                                                                   2                                        ) fixation, ammonia oxidation, exopolysaccharide production and a beneficial effect on plant growth. Similar genetic features were also present in other reconstructed MAGs. Three Nitrososphaeraceae MAGs are all most likely members of a so far unknown genus.</p>                                Conclusions                 <p>On a broad view, European agricultural soil microbiomes are similarly structured. Differences in community structure were observable, although analysis was complicated by heterogeneity in metadata recording. Our study highlights the need for standardized metadata reporting and the benefits of networking open data. Future soil sequencing studies should also consider high sequencing depths in order to enable reconstruction of genome bins. Intriguingly, the family Nitrososphaeraceae commonly seems to be of importance in agricultural microbiomes.</p>", "keywords": ["2. Zero hunger", "570", "Soil microbial diversity", "Metagenomically assembled genomes", "Research", "European soil", "Open metagenome data analysis", "15. Life on land", "Microbiology", "Thaumarchaeota", "QR1-502", "Environmental sciences", "Agricultural microbiome", "Soil health", "GE1-350"]}, "links": [{"href": "https://link.springer.com/content/pdf/10.1186/s40793-023-00479-9.pdf"}, {"href": "https://doi.org/PMC10064710"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Microbiome", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "PMC10064710", "name": "item", "description": "PMC10064710", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PMC10064710"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-03-30T00:00:00Z"}}, {"id": "PMC8060476", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:29:49Z", "type": "Journal Article", "created": "2021-04-08", "title": "Microbiome Modulation\u2014Toward a Better Understanding of Plant Microbiome Response to Microbial Inoculants", "description": "<p>Plant-associated microorganisms are involved in important functions related to growth, performance and health of their hosts. Understanding their modes of action is important for the design of promising microbial inoculants for sustainable agriculture. Plant-associated microorganisms are able to interact with their hosts and often exert specific functions toward potential pathogens; the underlying in vitro interactions are well studied. In contrast, in situ effects of inoculants, and especially their impact on the plant indigenous microbiome was mostly neglected so far. Recently, microbiome research has revolutionized our understanding of plants as coevolved holobionts but also of indigenous microbiome-inoculant interactions. Here we disentangle the effects of microbial inoculants on the indigenous plant microbiome and point out the following types of plant microbiome modulations: (i) transient microbiome shifts, (ii) stabilization or increase of microbial diversity, (iii) stabilization or increase of plant microbiome evenness, (iv) restoration of a dysbiosis/compensation or reduction of a pathogen-induced shift, (v) targeted shifts toward plant beneficial members of the indigenous microbiota, and (vi) suppression of potential pathogens. Therefore, we suggest microbiome modulations as novel and efficient mode of action for microbial inoculants that can also be mediated via the plant.</p", "keywords": ["0301 basic medicine", "2. Zero hunger", "0303 health sciences", "03 medical and health sciences", "mode of action", "microbial diversity", "microbiome shift", "healthy plant microbiome", "15. Life on land", "Microbiology", "QR1-502", "holobiont", "12. 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