{"type": "FeatureCollection", "features": [{"id": "10.1007/s10021-013-9650-7", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-31T06:55:35Z", "type": "Journal Article", "created": "2013-02-21", "title": "Stimulation Of Different Functional Groups Of Bacteria By Various Plant Residues As A Driver Of Soil Priming Effect", "description": "The turnover of organic matter in soil depends on the activity of microbial decomposers. However, little is known about how modifications of the diversity of soil microbial communities induced by fresh organic matter (FOM) inputs can regulate carbon cycling. Here, we investigated the decomposition of two 13C labeled crop residues (wheat and alfalfa) and the dynamics of the genetic structure and taxonomic composition of the soil bacterial communities decomposing 13C labeled FOM and native unlabeled soil organic matter (SOM), respectively. It was achieved by combining the stable isotope probing method with molecular tools (DNA genotyping and pyrosequencing of 16S rDNA). Although a priming effect (PE) was always induced by residue addition, its intensity increased with the degradability of the plant residue. The input of both wheat and alfalfa residues induced a rapid dynamics of FOM-degrading communities, corresponding to the stimulation of bacterial phyla which have been previously described as copiotrophic organisms. However, the dynamics and the identity of the bacterial groups stimulated depended on the residue added, with Firmicutes dominating in the wheat treatment and Proteobacteria dominating in the alfalfa treatment after 3\u00a0days of incubation. In both treatments, SOM-degrading communities were dominated by Acidobacteria, Verrucomicrobia, and Gemmatimonadetes phyla which have been previously described as oligotrophic organisms. An early stimulation of SOM-degrading populations mainly belonging to Firmicutes and Bacteroidetes groups was observed in the alfalfa treatment whereas no change occurred in the wheat treatment. Our findings support the hypothesis that the succession of bacterial taxonomic groups occurring in SOM- and FOM-degrading communities during the degradation process may be an important driver of the PE, and consequently of carbon dynamics in soil.", "keywords": ["0301 basic medicine", "2. Zero hunger", "570", "0303 health sciences", "[SDE.MCG]Environmental Sciences/Global Changes", "bacterial diversity", "[SDV.SA.SDS]Life Sciences [q-bio]/Agricultural sciences/Soil study", "15. Life on land", "[SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology", "630", "soil", "[SDE.MCG] Environmental Sciences/Global Changes", "03 medical and health sciences", "pyrosequencing", "[SDU.STU.GC]Sciences of the Universe [physics]/Earth Sciences/Geochemistry", "soil organic matter", "carbon cycle", "[SDU.STU.GC] Sciences of the Universe [physics]/Earth Sciences/Geochemistry", "[SDV.MP.BAC] Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology", "[SDV.SA.SDS] Life Sciences [q-bio]/Agricultural sciences/Soil study", "stable isotope probing"]}, "links": [{"href": "https://doi.org/10.1007/s10021-013-9650-7"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Ecosystems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s10021-013-9650-7", "name": "item", "description": "10.1007/s10021-013-9650-7", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s10021-013-9650-7"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-02-22T00:00:00Z"}}, {"id": "10.3389/fmicb.2016.01032", "type": "Feature", "geometry": null, "properties": {"updated": "2026-05-31T07:01:30Z", "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": "10.3389/fmicb.2016.01446", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-05-31T07:01:30Z", "type": "Journal Article", "created": "2016-09-14", "description": "Soil management is fundamental to all agricultural systems and fertilization practices have contributed substantially to the impressive increases in food production. Despite the pivotal role of soil microorganisms in agro-ecosystems, we still have a limited understanding of the complex response of the soil microbiota to organic and mineral fertilization in the very long-term. Here, we report the effects of different fertilization regimes (mineral, organic and combined mineral and organic fertilization), carried out for more than a century, on the structure and activity of the soil microbiome. Organic matter content, nutrient concentrations, and microbial biomass carbon were significantly increased by mineral, and even more strongly by organic fertilization. Pyrosequencing revealed significant differences between the structures of bacterial and fungal soil communities associated to each fertilization regime. Organic fertilization increased bacterial diversity, and stimulated microbial groups (Firmicutes, Proteobacteria, and Zygomycota) that are known to prefer nutrient-rich environments, and that are involved in the degradation of complex organic compounds. In contrast, soils not receiving manure harbored distinct microbial communities enriched in oligotrophic organisms adapted to nutrient-limited environments, as Acidobacteria. The fertilization regime also affected the relative abundances of plant beneficial and detrimental microbial taxa, which may influence productivity and stability of the agroecosystem. As expected, the activity of microbial exoenzymes involved in carbon, nitrogen, and phosphorous mineralization were enhanced by both types of fertilization. However, in contrast to comparable studies, the highest chitinase and phosphatase activities were observed in the solely mineral fertilized soil. Interestingly, these two enzymes showed also a particular high biomass-specific activities and a strong negative relation with soil pH. As many soil parameters are known to change slowly, the particularity of unchanged fertilization treatments since 1902 allows a profound assessment of linkages between management and abiotic as well as biotic soil parameters. Our study revealed that pH and TOC were the majors, while nitrogen and phosphorous pools were minors, drivers for structure and activity of the soil microbial community. Due to the long-term treatments studied, our findings likely represent permanent and stable, rather than transient, responses of soil microbial communities to fertilization.", "keywords": ["Soil nutrients", "0301 basic medicine", "2. Zero hunger", "0303 health sciences", "long-term fertilization", "microbial biomass", "15. Life on land", "microbial activity", "Microbiology", "QR1-502", "03 medical and health sciences", "13. Climate action", "soil microbial communities", "soil nutrients", "454 pyrosequencing"]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2016.01446"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Frontiers%20in%20Microbiology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3389/fmicb.2016.01446", "name": "item", "description": "10.3389/fmicb.2016.01446", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2016.01446"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2016-09-14T00:00:00Z"}}, {"id": "10.3390/d2060910", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-05-31T07:01:39Z", "type": "Journal Article", "created": "2010-06-07", "description": "

This study evaluated microbial communities of soil (0\uffe2\uff80\uff9310 cm) as affected by dryland cropping systems under different tillage practices after 5 years. The soil type was an Olton sandy loam with an average of 16.4% clay, 67.6% sand and 0.65 g kg\uffe2\uff88\uff921 of organic matter (OM). The cropping systems evaluated were grain sorghum (Sorghum bicolor L.)\uffe2\uff80\uff94cotton (Gossypium hirsutum) (Srg-Ct), cotton-winter rye (Secale cereale)-grain sorghum (Ct-Rye-Srg), and a rotation of forage (f) sorghum (Sorghum bicolor L. and Sorghum sudanense) with winter rye (Srf-Rye), which were under no-tillage (nt) and conventional tillage (ct) practices. Soil microbial communities under cotton based cropping systems (Srg-Ct and Ct-Rye-Srg) showed lower fungal:bacterial ratios compared to the soil under Srf-Rye. Soil under Srf-Rye showed higher population densities of Bacteroidetes and Proteobacteria while lower Actinobacteria compared to Srg-Ct and Ct-Rye-Srg. Chloroflexi, Gemmatimonadetes and Verrucomicrobiae were higher in tilled soil compared to the no-tilled plots. Regardless the limited irrigation available to sustain agricultural production within these dryland cropping systems, this study demonstrated that differences in microbial communities are more affected by crop rotation than tillage management history. Although soil fungal diversity was not analyzed in this study, pyrosequencing suggests that tillage practices can affect bacterial phyla distribution in this sandy soil.

", "keywords": ["FAME analysis", "0301 basic medicine", "2. Zero hunger", "0303 health sciences", "QH301-705.5", "bacterial diversity", "cropping systems", "pyrosequencing; soil microbial communities; bacterial diversity; FAME analysis; enzyme activities; cropping systems; tillage; GRACEnet", "15. Life on land", "6. Clean water", "GRACEnet", "03 medical and health sciences", "pyrosequencing", "enzyme activities", "soil microbial communities", "tillage", "Biology (General)"]}, "links": [{"href": "http://www.mdpi.com/1424-2818/2/6/910/pdf"}, {"href": "https://doi.org/10.3390/d2060910"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Diversity", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/d2060910", "name": "item", "description": "10.3390/d2060910", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/d2060910"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2010-06-07T00:00:00Z"}}, {"id": "10451/51021", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-05-31T07:05:20Z", "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": "

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.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.

", "keywords": ["2. Zero hunger", "0301 basic medicine", "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"}}], "links": [{"rel": "self", "type": "application/geo+json", "title": "This document as GeoJSON", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=pyrosequencing&f=json", "hreflang": "en-US"}, {"rel": "alternate", "type": "text/html", "title": "This document as HTML", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=pyrosequencing&f=html", "hreflang": "en-US"}, {"rel": "collection", "type": "application/json", "title": "Collection URL", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main", "hreflang": "en-US"}, {"type": "application/geo+json", "rel": "first", "title": "items (first)", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=pyrosequencing&", "hreflang": "en-US"}, {"rel": "last", "type": "application/geo+json", "title": "items (last)", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=pyrosequencing&offset=6", "hreflang": "en-US"}], "numberMatched": 6, "numberReturned": 6, "distributedFeatures": [], "timeStamp": "2026-05-31T10:00:41.284480Z"}