{"type": "FeatureCollection", "features": [{"id": "10.1111/1467-7660.00151", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:15Z", "type": "Journal Article", "created": "2003-03-11", "title": "Resettlement, Opium And Labour Dependence: Akha-Tai Relations In Northern Laos", "description": "

Forestry is a major source of revenue for the Lao People\uffe2\uff80\uff99s Democratic Republic. The Government\uffe2\uff80\uff99s view is that shifting cultivation in the highlands is the primary cause of deforestation and erosion; this has led it to establish a policy of eliminating shifting cultivation by the resettlement of highland people in or near the lowlands. Here, it is assumed, the highlanders will be able to lead a more sedentary existence, cultivate wet rice, and benefit from various forms of development assistance. In the district of Muang Sing in northern Laos this policy has been partly responsible for the movement of large numbers of Akha people downhill to settle on the lower slopes of the highlands, at the periphery of the lowlands. This movement has been further encouraged by the low productivity of the Akha swidden economy. This article argues that Akha expectations of a more secure livelihood have not been fulfilled due to the ravages of disease, high rates of opium addiction, and the lack of government assistance. Instead, the Akha of the lower slopes have become an impoverished labour force, exploited for the benefit of the politically and economically dominant Tai lowlanders.

", "keywords": ["2. Zero hunger", "0502 economics and business", "05 social sciences", "0507 social and economic geography", "1. No poverty", "15. Life on land"], "contacts": [{"organization": "Paul T. Cohen", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1111/1467-7660.00151"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Development%20and%20Change", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/1467-7660.00151", "name": "item", "description": "10.1111/1467-7660.00151", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/1467-7660.00151"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2000-01-01T00:00:00Z"}}, {"id": "10.1111/gcbb.12924", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:22Z", "type": "Journal Article", "created": "2022-01-29", "title": "The effects of integrated food and bioenergy cropping systems on crop yields, soil health, and biomass quality: The EU and Brazilian experience", "description": "Abstract

Integrated food and bioenergy production is a promising way to ensure regional/national food and energy security, efficient use of soil resources, and enhanced biodiversity, while contributing to the abatement of CO2 emissions. The objective of this study was to assess alternative crop rotation schemes as the basis for integrating and enhancing the sustainable biomass production within the food\uffe2\uff80\uff90energy agricultural context. Sunn hemp (Crotalaria spp.) in rotation with wheat (Triticum spp.) in the EU and with sugarcane (Saccharum spp.) in Brazil were evaluated. Sunn hemp did not negatively affect crop's productivity and soil fertility; wheat grain yields were maintained around the mean regional production levels (6, 7, 3 and Mg ha\uffe2\uff88\uff921 in Greece, Italy, and Spain, respectively), and the cumulative biomass in the extended rotation (wheat straw+sunn hemp) was between 1.5 and 2.0 times higher than in the conventional rotation. In Brazil, sugarcane stalks yield in clay soils increased by around 15\uffc2\uffa0Mg ha\uffe2\uff88\uff921\uffc2\uffa0year\uffe2\uff88\uff921 under sunn hemp rotation in comparison with bare fallow. Moreover, sunn hemp in the EU rotations did not have negative effects on soil available macronutrients, organic matter, pH, and cation exchange capacity, neither on C and N stocks in Brazil. The qualitative characteristics (mineral, ash, and hemicelluloses contents) of the cumulated biomass were somehow higher (in average +26%, +35%, and +3.4%, respectively) than in the conventional system. In summary, in temperate and tropical climates the integration of dedicated biomass legume crops within conventional systems could lead to enhanced biomass availability, crop diversification, and efficient use (in space and time) of the land resources.

", "keywords": ["legume crops", "0106 biological sciences", "2. Zero hunger", "advanced biofuels", "biomass", "TJ807-830", "04 agricultural and veterinary sciences", "15. Life on land", "Energy industries. Energy policy. Fuel trade", "01 natural sciences", "7. Clean energy", "Renewable energy sources", "12. Responsible consumption", "lignocellulose", "advanced biofuels; biomass; legume crops; lignocellulose; quantitative; qualitative traits; SOC; soil fertility; sugarcane", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "HD9502-9502.5", "SOC", "quantitative/qualitative traits"]}, "links": [{"href": "https://cris.unibo.it/bitstream/11585/895750/2/GCB%20Bioenergy%20-%202022%20-%20Zegada%e2%80%90Lizarazu%20-%20The%20effects%20of%20integrated%20food%20and%20bioenergy%20cropping%20systems%20on%20crop%20yields%20%20soil.pdf"}, {"href": "https://onlinelibrary.wiley.com/doi/pdf/10.1111/gcbb.12924"}, {"href": "https://doi.org/10.1111/gcbb.12924"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/GCB%20Bioenergy", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/gcbb.12924", "name": "item", "description": "10.1111/gcbb.12924", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/gcbb.12924"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-03-09T00:00:00Z"}}, {"id": "10.1111/gcb.13431", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:19Z", "type": "Journal Article", "created": "2016-07-14", "title": "Grazing intensity significantly affects belowground carbon and nitrogen cycling in grassland ecosystems: a meta-analysis", "description": "Abstract

Livestock grazing activities potentially alter ecosystem carbon (C) and nitrogen (N) cycles in grassland ecosystems. Despite the fact that numerous individual studies and a few meta\uffe2\uff80\uff90analyses had been conducted, how grazing, especially its intensity, affects belowground C and N cycling in grasslands remains unclear. In this study, we performed a comprehensive meta\uffe2\uff80\uff90analysis of 115 published studies to examine the responses of 19 variables associated with belowground C and N cycling to livestock grazing in global grasslands. Our results showed that, on average, grazing significantly decreased belowground C and N pools in grassland ecosystems, with the largest decreases in microbial biomass C and N (21.62% and 24.40%, respectively). In contrast, belowground fluxes, including soil respiration, soil net N mineralization and soil N nitrification increased by 4.25%, 34.67% and 25.87%, respectively, in grazed grasslands compared to ungrazed ones. More importantly, grazing intensity significantly affected the magnitude (even direction) of changes in the majority of the assessed belowground C and N pools and fluxes, and C\uffc2\uffa0:\uffc2\uffa0N ratio as well as soil moisture. Specifically,light grazing contributed to soil C and N sequestration whereas moderate and heavy grazing significantly increased C and N losses. In addition, soil depth, livestock type and climatic conditions influenced the responses of selected variables to livestock grazing to some degree. Our findings highlight the importance of the effects of grazing intensity on belowground C and N cycling, which may need to be incorporated into regional and global models for predicting effects of human disturbance on global grasslands and assessing the climate\uffe2\uff80\uff90biosphere feedbacks.

", "keywords": ["Carbon sequestration", "Mineralization", "Livestock", "Nitrogen", "Soil microbial biomass", "Poaceae", "333", "Carbon Cycle", "Soil", "Animals", "mineralization", "Herbivory", "FoR 06 (Biological Sciences)", "Ecosystem", "2. Zero hunger", "Science & Technology", "Ecology", "050205 Environmental Management", "04 agricultural and veterinary sciences", "Nitrogen Cycle", "15. Life on land", "carbon sequestration", "Grassland", "soil microbial biomass", "Carbon", "Environmental sciences", "Biological sciences", "Heavy grazing", "13. Climate action", "heavy grazing", "CO2 emission", "Biodiversity Conservation", "0401 agriculture", " forestry", " and fisheries", "FoR 05 (Environmental Sciences)", "Life Sciences & Biomedicine"]}, "links": [{"href": "https://doi.org/10.1111/gcb.13431"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Global%20Change%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/gcb.13431", "name": "item", "description": "10.1111/gcb.13431", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/gcb.13431"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2016-09-22T00:00:00Z"}}, {"id": "10.1128/mbio.00455-24", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:48Z", "type": "Journal Article", "created": "2024-03-25", "title": "Priorities, opportunities, and challenges for integrating microorganisms into Earth system models for climate change prediction", "description": "ABSTRACT

Climate change jeopardizes human health, global biodiversity, and sustainability of the biosphere. To make reliable predictions about climate change, scientists use Earth system models (ESMs) that integrate physical, chemical, and biological processes occurring on land, the oceans, and the atmosphere. Although critical for catalyzing coupled biogeochemical processes, microorganisms have traditionally been left out of ESMs. Here, we generate a \uffe2\uff80\uff9ctop 10\uffe2\uff80\uff9d list of priorities, opportunities, and challenges for the explicit integration of microorganisms into ESMs. We discuss the need for coarse-graining microbial information into functionally relevant categories, as well as the capacity for microorganisms to rapidly evolve in response to climate-change drivers. Microbiologists are uniquely positioned to collect novel and valuable information necessary for next-generation ESMs, but this requires data harmonization and transdisciplinary collaboration to effectively guide adaptation strategies and mitigation policy.

", "keywords": ["Naturgeografi", "Earth", " Planet", "Climate Change", "Microbiology", "traits", "biogeochemistry", "Humans", "Ecosystem", "Biomedical and Clinical Sciences", "Bacteria", "biogeochemistry; modeling; traits; climate change", "modeling", "Opinion/Hypothesis", "Biodiversity", "Biological Sciences", "Medical microbiology", "Models", " Theoretical", "15. Life on land", "QR1-502", "6. Clean water", "Climate Science", "3. Good health", "Climate Action", "climate change", "Physical Geography", "Medical Microbiology", "13. Climate action", "Biochemistry and cell biology", "Biochemistry and Cell Biology", "Generic health relevance", "Klimatvetenskap"]}, "links": [{"href": "https://journals.asm.org/doi/pdf/10.1128/mbio.00455-24"}, {"href": "https://doi.org/10.1128/mbio.00455-24"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/mBio", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1128/mbio.00455-24", "name": "item", "description": "10.1128/mbio.00455-24", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1128/mbio.00455-24"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-05-08T00:00:00Z"}}, {"id": "10.1128/msystems.00562-19", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:48Z", "type": "Journal Article", "created": "2020-01-13", "title": "Transcriptomic Response of Nitrosomonas europaea Transitioned from Ammonia- to Oxygen-Limited Steady-State Growth", "description": "

Nitrification is a ubiquitous microbially mediated process in the environment and an essential process in engineered systems such as wastewater and drinking water treatment plants. However, nitrification also contributes to fertilizer loss from agricultural environments, increasing the eutrophication of downstream aquatic ecosystems, and produces the greenhouse gas nitrous oxide. As ammonia-oxidizing bacteria are the most dominant ammonia-oxidizing microbes in fertilized agricultural soils, understanding their responses to a variety of environmental conditions is essential for curbing the negative environmental effects of nitrification. Notably, oxygen limitation has been reported to significantly increase nitric oxide and nitrous oxide production during nitrification. Here, we investigate the physiology of the best-characterized ammonia-oxidizing bacterium, Nitrosomonas europaea , growing under oxygen-limited conditions. Our results reinforce the notion that each cultivar on each location recruits a unique microbial community and that these communities are modulated by the vegetative growth stage of the plant. Moreover, inoculation of a Bacillus amyloliquefaciens strain QST713-based product on potatoes also changed the abundance of specific taxonomic groups and the structure of local networks in those locations where the product caused an increase in the yield.

", "keywords": ["Crops", " Agricultural", "0301 basic medicine", "2. Zero hunger", "Biological Products", "0303 health sciences", "Bacteria", "Microbiota", "Fungi", "High-Throughput Nucleotide Sequencing", "Agriculture", "Agricultural Inoculants", "15. Life on land", "Microbiology", "QR1-502", "United States", "Soil", "03 medical and health sciences", "RNA", " Ribosomal", " 16S", "Rhizosphere", "Soil Microbiology", "Research Article", "Solanum tuberosum"]}, "links": [{"href": "https://journals.asm.org/doi/pdf/10.1128/mSphere.00130-21"}, {"href": "https://doi.org/10.1128/msphere.00130-21"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/mSphere", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1128/msphere.00130-21", "name": "item", "description": "10.1128/msphere.00130-21", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1128/msphere.00130-21"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-08-25T00:00:00Z"}}, {"id": "10.1128/msystems.00226-20", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:48Z", "type": "Journal Article", "created": "2020-04-06", "title": "Tracking the Dairy Microbiota from Farm Bulk Tank to Skimmed Milk Powder", "description": "

Microorganisms can enter and persist in dairy at several stages of the processing chain. Detection of microorganisms within dairy food processing is currently a time-consuming and often inaccurate process. This study provides evidence that high-throughput sequencing can be used as an effective tool to accurately identify microorganisms along the processing chain. In addition, it demonstrates that the populations of microbes change from raw milk to the end product. Routine implementation of high-throughput sequencing would elucidate the factors that influence population dynamics. This will enable a manufacturer to adopt control measures specific to each stage of processing and respond in an effective manner, which would ultimately lead to increased food safety and quality.

", "keywords": ["2. Zero hunger", "0301 basic medicine", "metagenomics", "0303 health sciences", "whole-milk silo", "collection tanker", "bulk tank milk", "Microbiology", "QR1-502", "3. Good health", "03 medical and health sciences", "skimmed milk silo", "skimmed milk powder", "microbiota", "dairy", "processing", "16S rRNA gene amplicon sequencing", "Research Article"]}, "links": [{"href": "https://journals.asm.org/doi/pdf/10.1128/mSystems.00226-20"}, {"href": "https://doi.org/10.1128/msystems.00226-20"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/mSystems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1128/msystems.00226-20", "name": "item", "description": "10.1128/msystems.00226-20", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1128/msystems.00226-20"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-04-28T00:00:00Z"}}, {"id": "10.1128/msystems.00344-21", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:48Z", "type": "Journal Article", "created": "2021-05-10", "title": "Network Properties of Local Fungal Communities Reveal the Anthropogenic Disturbance Consequences of Farming Practices in Vineyard Soils", "description": "

Soil fungal communities play a key role in agroecosystem sustainability. The complexity of fungal communities, at both taxonomic and functional levels, makes it difficult to find clear patterns connecting community composition with ecosystem function and to understand the impact of biotic (interspecies interactions) and abiotic (e.g., climate or anthropogenic disturbances) factors on it.

", "keywords": ["Ecolog\u00eda (Biolog\u00eda)", "0301 basic medicine", "2. Zero hunger", "0303 health sciences", "agroecosystems", "local networks", "Local networks", "Microbiolog\u00eda (Biolog\u00eda)", "579", "Ecolog\u00eda", "Emergent properties", "15. Life on land", "Microbiolog\u00eda", "fungal communities", "Microbiology", "574", "QR1-502", "Fungal communities", "03 medical and health sciences", "2401.06 Ecolog\u00eda animal", "emergent properties", "11. Sustainability", "2414 Microbiolog\u00eda", "Agroecosystems", "Research Article"]}, "links": [{"href": "https://journals.asm.org/doi/pdf/10.1128/mSystems.00344-21"}, {"href": "https://doi.org/10.1128/msystems.00344-21"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/mSystems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1128/msystems.00344-21", "name": "item", "description": "10.1128/msystems.00344-21", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1128/msystems.00344-21"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-06-29T00:00:00Z"}}, {"id": "10.1128/msystems.00786-20", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:48Z", "type": "Journal Article", "created": "2021-01-11", "title": "Distribution of Mixotrophy and Desiccation Survival Mechanisms across Microbial Genomes in an Arid Biological Soil Crust Community", "description": "

This study represents a comprehensive community-wide genome-centered metagenome analysis of biological soil crust (BSC) communities in arid environments, providing insights into the distribution of genes encoding different energy generation mechanisms, as well as survival strategies, among populations in an arid soil ecosystem. It reveals the metabolic potential of several uncultured and previously unsequenced microbial genera, families, and orders, as well as differences in the metabolic potential between the most abundant BSC populations and their cultured relatives, highlighting once more the danger of inferring function on the basis of taxonomy.

", "keywords": ["0301 basic medicine", "BACTERIAL", "dormancy", "Survival", "RUBROBACTER-RADIOTOLERANS", "DIVERSITY", "Biological soil crust", "survival", "Microbiology", "7. Clean energy", "biological soil crust", "03 medical and health sciences", "mixotrophy", "Dormancy", "Mixotrophy", "SPORULATION", "COLORADO PLATEAU", "2. Zero hunger", "106022 Mikrobiologie", "metagenomics", "0303 health sciences", "ARTHROBACTER-RADIOTOLERANS", "15. Life on land", "XYLANOPHILUS", "QR1-502", "SP NOV.", "SURVIVAL", "106022 Microbiology", "RADIATION", "Metagenomics", "MEMBERS", "Research Article"]}, "links": [{"href": "https://journals.asm.org/doi/pdf/10.1128/mSystems.00786-20"}, {"href": "https://doi.org/10.1128/msystems.00786-20"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/mSystems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1128/msystems.00786-20", "name": "item", "description": "10.1128/msystems.00786-20", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1128/msystems.00786-20"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-02-23T00:00:00Z"}}, {"id": "10.1128/msystems.00803-19", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:48Z", "type": "Journal Article", "created": "2020-04-20", "title": "Soil Microbial Biogeography in a Changing World: Recent Advances and Future Perspectives", "description": "

Soil microbial communities are fundamental to maintaining key soil processes associated with litter decomposition, nutrient cycling, and plant productivity and are thus integral to human well-being. Recent technological advances have exponentially increased our knowledge concerning the global ecological distributions of microbial communities across space and time and have provided evidence for their contribution to ecosystem functions. However, major knowledge gaps in soil biogeography remain to be addressed over the coming years as technology and research questions continue to evolve.

", "keywords": ["0301 basic medicine", "2. Zero hunger", "future perspectives", "0303 health sciences", "soil microbial biogeography", "recent advances", "15. Life on land", "Microbiology", "QR1-502", "3. Good health", "03 medical and health sciences", "13. Climate action", "XXXXXX - Unknown", "Minireview"]}, "links": [{"href": "https://doi.org/10.1128/msystems.00803-19"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/mSystems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1128/msystems.00803-19", "name": "item", "description": "10.1128/msystems.00803-19", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1128/msystems.00803-19"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-04-28T00:00:00Z"}}, {"id": "10.1128/msystems.00859-24", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:48Z", "type": "Journal Article", "created": "2024-09-10", "title": "A novel barcoded nanopore sequencing workflow of high-quality, full-length bacterial 16S amplicons for taxonomic annotation of bacterial isolates and complex microbial communities", "description": "ABSTRACT

Due to recent improvements, Nanopore sequencing has become a promising method for experiments relying on amplicon sequencing. We describe a flexible workflow to generate and annotate high-quality, full-length 16S rDNA amplicons. We evaluated it for two applications, namely, (i) identification of bacterial isolates and (ii) species-level profiling of microbial communities. We assessed the identification of single bacterial isolates by sequencing, using a set of barcoded full-length 16S rRNA gene primer pairs (pair A), on 47 isolates encompassing multiple genera and compared those results with matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS)-based identification. Species-level community profiling was tested with two sets of barcoded full-length 16S primer pairs (A and B) and compared to the results obtained with shotgun Illumina sequencing using 27 stool samples. We developed a Nextflow pipeline to retain high-quality reads and taxonomically annotate them. We found high agreement between our workflow and MALDI-TOF data for isolate identification (positive predictive value = 0.90, Cram\uffc3\uffa9r\uffe2\uff80\uff99s V = 0.857, and Theil\uffe2\uff80\uff99s U = 0.316). For species-level community profiling, we found strong correlations ( r s > 0.6) of alpha diversity indices between the two primer sets and Illumina sequencing. At the community level, we found significant but small differences when comparing sequencing techniques. Finally, we found a moderate to strong correlation when comparing the relative abundances of individual species (average r s = 0.6 and 0.533 for primers A and B). Despite identified shortcomings, the proposed workflow enabled accurate identification of single bacterial isolates and prominent features in microbial communities, making it a worthwhile alternative to MALDI-TOF MS and Illumina sequencing.

IMPORTANCE

A quick, robust, simple, and cost-effective method to identify bacterial isolates and communities in each sample is indispensable in the fields of microbiology and infection biology. Recent technological advances in Oxford Nanopore Technologies sequencing make this technique an attractive option considering the adaptability, portability, and cost-effectiveness of the platform, even with small sequencing batches. Here, we validated a flexible workflow to identify bacterial isolates and characterize bacterial communities using the Oxford Nanopore Technologies sequencing platform combined with the most recent v14 chemistry kits. For bacterial isolates, we compared our nanopore-based approach to matrix-assisted laser desorption ionization-time of flight mass spectrometry-based identification. For species-level profiling of complex bacterial communities, we compared our nanopore-based approach to Illumina shotgun sequencing. For reproducibility purposes, we wrapped the code used to process the sequencing data into a ready-to-use and self-contained Nextflow pipeline.

", "keywords": ["DNA", " Bacterial", "1303 Biochemistry", "gut microbiome", "610 Medicine & health", "Microbiology", "Workflow", "1311 Genetics", "RNA", " Ribosomal", " 16S", "1312 Molecular Biology", "1706 Computer Science Applications", "DNA Barcoding", " Taxonomic", "Humans", "DNA sequencing", "Bacteria", "10179 Institute of Medical Microbiology", "Microbiota", "2404 Microbiology", "1314 Physiology", "bioinformatics", "QR1-502", "Nanopore Sequencing", "1105 Ecology", " Evolution", " Behavior and Systematics", "Spectrometry", " Mass", " Matrix-Assisted Laser Desorption-Ionization", "570 Life sciences; biology", "2611 Modeling and Simulation", "Research Article"]}, "links": [{"href": "https://doi.org/10.1128/msystems.00859-24"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/mSystems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1128/msystems.00859-24", "name": "item", "description": "10.1128/msystems.00859-24", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1128/msystems.00859-24"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-04-11T00:00:00Z"}}, {"id": "10.1128/spectrum.01101-23", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:48Z", "type": "Journal Article", "created": "2023-09-19", "title": "Bacteriophages limitedly contribute to the antimicrobial resistome of microbial communities in wastewater treatment plants", "description": "ABSTRACT

Bacteriophages are known as players in the transmission of antimicrobial resistance genes (ARGs) by horizontal gene transfer. In this study, we characterized the bacteriophage community and the associated ARGs to estimate the potential for phages to spread ARGs in aquatic ecosystems analyzing the intra- and extracellular DNA isolated from two wastewater treatment plants (WWTPs) by shotgun metagenomics. We compared the phage antimicrobial resistome with the bacterial resistome and investigated the effect of the final disinfection treatment on the phage community and its resistome. Phage community was mainly composed by Siphoviridae and other members of the order Caudovirales . The final disinfection only marginally affected the composition of the phage community, and it was not possible to measure its effect on the antimicrobial resistome. Indeed, only three phage metagenome-assembled genomes (pMAGs) annotated as Siphoviridae , Padoviridae , and Myoviridae were positive for putative ARGs. Among the detected ARGs, i.e., dfr B6, rpo B mutants, and EF-Tu mutants, the first one was not annotated in the bacterial MAGs. Overall, these results demonstrate that bacteriophages limitedly contribute to the whole antimicrobial resistome. However, in order to obtain a comprehensive understanding of the antimicrobial resistome within a microbial community, the role of bacteriophages needs to be investigated.

IMPORTANCE

WWTPs are considered hotspots for the spread of ARGs by horizontal gene transfer. In this study, we evaluated the phage composition and the associated antimicrobial resistome by shotgun metagenomics of samples collected before and after the final disinfection treatment. Only a few bacteriophages carried ARGs. However, since one of the detected genes was not found in the bacterial metagenome-assembled genomes, it is necessary to investigate the phage community in order to gain a comprehensive overview of the antimicrobial resistome. This investigation could help assess the potential threats to human health.

", "keywords": ["metagenomics", "bacteriophages", "11. Sustainability", "Bacteriophages", "metagenomic assembled genomes", "antimicrobial resistance", "antimicrobial resistome", "wastewater treatment plants", "Microbiology", "6. Clean water", "QR1-502", "12. Responsible consumption", "Research Article"]}, "links": [{"href": "https://journals.asm.org/doi/pdf/10.1128/spectrum.01101-23"}, {"href": "https://doi.org/10.1128/spectrum.01101-23"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microbiology%20Spectrum", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1128/spectrum.01101-23", "name": "item", "description": "10.1128/spectrum.01101-23", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1128/spectrum.01101-23"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-10-17T00:00:00Z"}}, {"id": "10.1128/mBio.00799-17", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:48Z", "type": "Journal Article", "created": "2017-03-19", "title": "Bacterial Physiological Adaptations to Contrasting Edaphic Conditions Identified Using Landscape Scale Metagenomics", "description": "Abstract

Environmental factors relating to soil pH are widely known to be important in structuring soil bacterial communities, yet the relationship between taxonomic community composition and functional diversity remains to be determined. Here, we analyze geographically distributed soils spanning a wide pH gradient and assess the functional gene capacity within those communities using whole genome metagenomics. Low pH soils consistently had fewer taxa (lower alpha and gamma diversity), but only marginal reductions in functional alpha diversity and equivalent functional gamma diversity. However, coherent changes in the relative abundances of annotated genes between pH classes were identified; with functional profiles clustering according to pH independent of geography. Differences in gene abundances were found to reflect survival and nutrient acquisition strategies, with organic-rich acidic soils harboring a greater abundance of cation efflux pumps, C and N direct fixation systems and fermentation pathways indicative of anaerobiosis. Conversely, high pH soils possessed more direct transporter-mediated mechanisms for organic C and N substrate acquisition. These findings show that bacterial functional versatility may not be constrained by taxonomy, and we further identify the range of physiological adaptations required to exist in soils of varying nutrient availability and edaphic conditions.

", "keywords": ["Q Science", "0301 basic medicine", "330", "Supplementary Data", "ecophysiology", "Ecophysiology", "NE/E006353/1", "Bacterial Physiological Phenomena", "Microbiology", "Soil", "03 medical and health sciences", "Virology", "European Commission", "Ecosystem", "Phylogeny", "Soil Microbiology", "2. Zero hunger", "655240", "metagenomics", "0303 health sciences", "Bacteria", "Natural Environment Research Council (NERC)", "Q", "NE/M017125/1", "Biodiversity", "Hydrogen-Ion Concentration", "15. Life on land", "Adaptation", " Physiological", "soil microbiology", "QR1-502", "United Kingdom", "3. Good health", "Soil microbiology", "Metagenomics", "Genome", " Bacterial", "Research Article"]}, "links": [{"href": "https://www.biorxiv.org/content/10.1101/117887v1.full.pdf"}, {"href": "https://journals.asm.org/doi/pdf/10.1128/mBio.00799-17"}, {"href": "https://doi.org/10.1128/mBio.00799-17"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/mBio", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1128/mBio.00799-17", "name": "item", "description": "10.1128/mBio.00799-17", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1128/mBio.00799-17"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-03-18T00:00:00Z"}}, {"id": "10.1186/s40793-022-00407-3", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:57Z", "type": "Journal Article", "created": "2022-04-01", "title": "Rhizosheath\u2013root system changes exopolysaccharide content but stabilizes bacterial community across contrasting seasons in a desert environment", "description": "Abstract Background

In hot deserts daily/seasonal fluctuations pose great challenges to the resident organisms. However, these extreme ecosystems host unique microenvironments, such as the rhizosheath\uffe2\uff80\uff93root system of desert speargrasses in which biological activities and interactions are facilitated by milder conditions and reduced fluctuations. Here, we examined the bacterial microbiota associated with this structure and its surrounding sand in the desert speargrass Stipagrostis pungens under the contrasting environmental conditions of summer and winter in the Sahara Desert.

Results

The belowground rhizosheath\uffe2\uff80\uff93root system has higher nutrient and humidity contents, and cooler temperatures than the surrounding sand. The plant responds to the harsh environmental conditions of the summer by increasing the abundance and diversity of extracellular polymeric substances (EPS) compared to the winter. On the contrary, the bacterial community associated with the rhizosheath\uffe2\uff80\uff93root system and its interactome remain stable and, unlike the bulk sand, are unaffected by the seasonal environmental variations. The rhizosheath\uffe2\uff80\uff93root system bacterial communities are consistently dominated by Actinobacteria and Alphaproteobacteria and form distinct bacteria communities from those of bulk sand in the two seasons. The microbiome-stabilization mediated by the plant host acts to consistently retain beneficial bacteria with multiple plant growth promoting functions, including those capable to produce EPS, which increase the sand water holding capacity ameliorating the rhizosheath micro-environment.

Conclusions

Our results reveal the capability of plants in desert ecosystems to stabilize their below ground microbial community under seasonal contrasting environmental conditions, minimizing the heterogeneity of the surrounding bulk sand and contributing to the overall holobiont resilience under poly-extreme conditions.

", "keywords": ["Desert; Desertification; Environmental fluctuation; Environmentally-independent microbiome; Extracellular polymeric substances (EPS); PGP microorganisms; Plant legacy; Plant-microbiome; Rhizosheath", "Plant legacy", "0301 basic medicine", "2. Zero hunger", "0303 health sciences", "Environmentally-independent microbiome", "15. Life on land", "Rhizosheath", "Microbiology", "QR1-502", "Environmental fluctuation", "Environmental sciences", "Plant-microbiome", "03 medical and health sciences", "PGP microorganisms", "13. Climate action", "Desert; Desertification; Environmental fluctuation; Environmentally-independent microbiome; Extracellular polymeric substances (EPS); PGP microorganisms; Plant legacy; Plant-microbiome; Rhizosheath;", "Extracellular polymeric substances (EPS)", "GE1-350", "Desert", "Desertification", "Research Article"]}, "links": [{"href": "https://air.unimi.it/bitstream/2434/921619/2/Marasco%20et%20al.%202022_Rhizosheat%20bact%20comm_EnvMicrobiome.pdf"}, {"href": "https://iris.unive.it/bitstream/10278/5089931/1/doi.org%3a10.1186%3as40793-022-00407-3.pdf"}, {"href": "https://arpi.unipi.it/bitstream/11568/1159772/2/Marasco%20et%20al.%20-%202022%20-%20Rhizosheath%e2%80%93root%20system%20changes%20exopolysaccharide%20.pdf"}, {"href": "https://flore.unifi.it/bitstream/2158/1285602/1/Marasco%20et%20al%20Env%20Microbiome%202022.pdf"}, {"href": "https://doi.org/10.1186/s40793-022-00407-3"}, {"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/s40793-022-00407-3", "name": "item", "description": "10.1186/s40793-022-00407-3", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1186/s40793-022-00407-3"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-04-01T00:00:00Z"}}, {"id": "10.1186/s40793-023-00479-9", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:57Z", "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

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.

Results

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.

Conclusions

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.

", "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": "10.1128/msystems.00495-19", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:48Z", "type": "Journal Article", "created": "2020-04-13", "title": "Energetic Basis of Microbial Growth and Persistence in Desert Ecosystems", "description": "

Microbial life is surprisingly abundant and diverse in global desert ecosystems. In these environments, microorganisms endure a multitude of physicochemical stresses, including low water potential, carbon and nitrogen starvation, and extreme temperatures. In this review, we summarize our current understanding of the energetic mechanisms and trophic dynamics that underpin microbial function in desert ecosystems. Accumulating evidence suggests that dormancy is a common strategy that facilitates microbial survival in response to water and carbon limitation.

", "keywords": ["0301 basic medicine", "dormancy", "CYANOBACTERIAL EXOPOLYSACCHARIDES", "Trace gas", "Microbiology", "SOIL CRUSTS", "Energy reserve", "HIGH-AFFINITY", "03 medical and health sciences", "trace gas", "ATMOSPHERIC TRACE GASES", "Energetics", "energy reserve", "Dormancy", "SOR RONDANE MOUNTAINS", "Desert", "Photosynthesis", "106026 Ecosystem research", "CARBON-MONOXIDE", "desert", "ATACAMA DESERT", "energetics", "2. Zero hunger", "106022 Mikrobiologie", "0303 health sciences", "photosynthesis", "COMMUNITY RESPONSE", "15. Life on land", "QR1-502", "106026 \u00d6kosystemforschung", "DRY SOIL", "13. Climate action", "MOLECULAR-HYDROGEN", "106022 Microbiology", "Minireview"]}, "links": [{"href": "https://journals.asm.org/doi/pdf/10.1128/mSystems.00495-19"}, {"href": "https://doi.org/10.1128/msystems.00495-19"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/mSystems", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1128/msystems.00495-19", "name": "item", "description": "10.1128/msystems.00495-19", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1128/msystems.00495-19"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-04-28T00:00:00Z"}}, {"id": "10.3389/fmicb.2017.01947", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:19:03Z", "type": "Journal Article", "created": "2017-10-10", "title": "Nitric Oxide Accumulation: The Evolutionary Trigger for Phytopathogenesis", "description": "Many publications highlight the importance of nitric oxide (NO) in plant-bacteria interactions, either in the promotion of health and plant growth or in pathogenesis. However, the role of NO in the signaling between bacteria and plants and in the fate of their interaction, as well as the reconstruction of their interactive evolution, remains largely unknown. Despite the complexity of the evolution of life on Earth, we explore the hypothesis that denitrification and aerobic respiration were responsible for local NO accumulation, which triggered primordial antagonistic biotic interactions, namely the first phytopathogenic interactions. N-oxides, including NO, could globally accumulate via lightning synthesis in the early anoxic ocean and constitute pools for the evolution of denitrification, considered an early step of the biological nitrogen cycle. Interestingly, a common evolution may be proposed for components of denitrification and aerobic respiration pathways, namely for NO and oxygen reductases, a theory compatible with the presence of low amounts of oxygen before the great oxygenation event (GOE), which was generated by Cyanobacteria. During GOE, the increase in oxygen caused the decrease of Earth's temperature and the consequent increase of oxygen dissolution and availability, making aerobic respiration an increasingly dominant trait of the expanding mesophilic lifestyle. Horizontal gene transfer was certainly important in the joint expansion of mesophily and aerobic respiration. First denitrification steps lead to NO formation through nitrite reductase activity, and NO may further accumulate when oxygen binds NO reductase, resulting in denitrification blockage. The consequent transient NO surplus in an oxic niche could have been a key factor for a successful outcome of an early denitrifying prokaryote able to scavenge oxygen by NO/oxygen reductase or by an independent heterotrophic aerobic respiration pathway. In fact, NO surplus could result in toxicity causing 'the first disease' in oxygen-producing Cyanobacteria. We inspected in bacteria the presence of sequences similar to the NO-producing nitrite reductase nirS gene of Thermus thermophilus, an extreme thermophilic aerobe of the Thermus/Deinococcus group, which constitutes an ancient lineage related to Cyanobacteria. In silico analysis revealed the relationship between the presence of nirS genes and phytopathogenicity in Gram-negative bacteria.", "keywords": ["aerobic respiration", "0301 basic medicine", "denitrification", "Thermus thermophilus", "nitrite reductase NirS", "Horizontal gene transfer", "Denitrific", "Microbiology", "QR1-502", "Nitrite reductase NirS", "Ationerobic respiration", "03 medical and health sciences", "13. Climate action", "horizontal gene transfer"]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2017.01947"}, {"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.2017.01947", "name": "item", "description": "10.3389/fmicb.2017.01947", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2017.01947"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-10-10T00:00:00Z"}}, {"id": "10.3389/fmicb.2025.1372302", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:19:04Z", "type": "Journal Article", "created": "2025-02-25", "title": "Bio-electrosynthesis of polyhydroxybutyrate and surfactants in microbial fuel cells: a preliminary study", "description": "

Microbial Electrochemical Technology (MET) offers a promising avenue for CO2 utilization by leveraging the ability of chemolithotrophic microorganisms to use inorganic carbon in biosynthetic processes. By harnessing the power of electroactive bacteria, METs can facilitate the conversion of inorganic carbon into organic compounds. Therefore, this work combines biosurfactant production at the anode and PHB production at the cathode of Microbial Fuel Cells (MFCs), while testing the efficiency of Microbial Electrosynthesis Cells (MECs), and traditional culture in liquid media. This study employed a consortium of Pseudomonas aeruginosa PA1430/CO1 and Shewanella oneidensis MR-1, to provide reducing equivalents to Cupriavidus necator DSM428 for CO2 fixation and polyhydroxybutyrate (PHB) production. Glycerol was used as a carbon source by the anode consortium to investigate biosurfactant production. Additionally, Adaptive Laboratory Evolution (ALE) was employed to enhance the efficiency of this process to develop biofilms capable of synthesizing PHB from CO2 in MFCs under a controlled gas atmosphere (10% CO2, 10% O2, 2% H2, 78% N2). Observed results showed a higher direct CO2 removal from the gas mix in MECs (73%) than in MFCs (65%) compared to control cultures. Anionic (18.8 mg/L) and non-ionic (14.6 mg/L) surfactants were primarily present at the anodes of MFCs. Confocal microscope analysis revealed that the accumulation of PHBs in C. necator was significantly higher in MFCs (73% of cell volume) rather than in MECs (23%) and control cultures (40%). Further analyses on metabolites in the different systems are ongoing. Our data gave evidence that the anode consortium was able to provide enough electrons to sustain the chemolithotrophic growth of C. necator and the biosynthesis of PHBs at the cathode of MFCs, in a mechanism suggestive of the direct interspecies electron transfer (DIET), naturally occurring in natural environment.Biofuel policies are a subset of policies designed to achieve energy security, an improved environment, enhanced agricultural incomes, technological change, and overall economic benefits, with increased domestic energy production creating green jobs and foreign exchange savings. In assessing this broad spectrum of proclaimed policy goals with the outcome of biofuel mandates, subsidies, import barriers, binary sustainability standards, and indirect land use measures, we identify many perverse and contradictory effects. Most importantly, we show how biofuel policies established the crop-energy price link and hence the food-fuel trade-off, the contradictory effects of combining mandates with different subsidies, the various surprising welfare economic effects, and the various inconsistencies associated with binary sustainability standards and carbon leakages. We conclude with examples of how biofuel policies have generated paradoxical effects in many other different dimensions.

", "keywords": ["2. Zero hunger", "biofuels", " mandates", " subsidies", " tariffs", " externalities", " greenhouse gases", " traffic congestion", " air pollution", " burden of taxation", " agriculture", " environment", " energy", "05 social sciences", "1. No poverty", "jel:H23", "7. Clean energy", "jel:H21", "12. Responsible consumption", "13. Climate action", "jel:Q54", "0502 economics and business", "11. Sustainability", "jel:Q48", "jel:Q56", "jel:R48"], "contacts": [{"organization": "Harry de Gorter, Dusan Drabik, David R. Just,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1146/annurev-resource-091912-151933"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Annual%20Review%20of%20Resource%20Economics", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1146/annurev-resource-091912-151933", "name": "item", "description": "10.1146/annurev-resource-091912-151933", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1146/annurev-resource-091912-151933"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-06-01T00:00:00Z"}}, {"id": "10.1177/0972622518768679", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:56Z", "type": "Journal Article", "created": "2018-05-09", "title": "Profiling Customers Based on Their Social Risk Perception: A Cluster Analysis Approach", "description": "

Past research asserts that social risk is an important determinant of consumer purchase behaviour; however, the characteristics of consumers who perceive high/low social risk in a purchase decision have been largely neglected. This study examines consumer social risk perception from a sample of Indian consumers of automobiles. The study segments the consumers using a cluster analysis, and explores differences between clusters based on consumers\u2019 social risk perception and their psychological, cultural, and socio-demographic variables. Need for cognition (NFC) and risk-taking tendency are the two psychological variables focused in the study. The three cultural dimensions considered include collectivism, power distance, and masculinity. The cluster analysis yielded three clusters: high social risk perceivers, medium social risk perceivers, and low social risk perceivers. High social risk perceivers are found to be the individuals with high NFC, low risk-taking tendency, high collectivism, low power distance, and high masculinity. Medium social risk perceivers are the individuals with medium level of NFC, risk taking tendency and collectivism, and are low on power distance and masculinity. Low social risk perceivers are the consumers low in NFC, high in risk-taking tendency, low on collectivism, high on power distance, and low on masculinity. Further, each cluster was cross tabulated with consumer demographics.

", "keywords": ["2. Zero hunger", "0502 economics and business", "05 social sciences"], "contacts": [{"organization": "Mandeep Kaur Ghuman, Bikram Jit Singh Mann,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1177/0972622518768679"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Metamorphosis%3A%20A%20Journal%20of%20Management%20Research", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1177/0972622518768679", "name": "item", "description": "10.1177/0972622518768679", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1177/0972622518768679"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-05-08T00:00:00Z"}}, {"id": "10.1177/0037549715620501", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:55Z", "type": "Journal Article", "created": "2015-12-17", "title": "Express bus fare optimization based on passenger choice behavior", "description": "

A change in bus fare influences passenger choice behavior, resulting in a change of passenger flow and passengers\u2019 total travel time. In this paper, a bi-level model was built to optimize the bus fare. The upper-level used the passenger flow and the travel time of passengers to optimize the bus fare. The lower-level is an agent-based simulation model that can simulate the passenger flow based on the passenger choice behavior. Then the tabu search algorithm was used to solve the bi-level model. Finally, the bi-level model is verified using two bus routes of Dalian, China. The result proves the bi-level model is reliable.

", "keywords": ["11. Sustainability", "0502 economics and business", "05 social sciences"], "contacts": [{"organization": "Baozhen Yao, Zhe Wang, Qingda Cao, Lu Jin, Mingheng Zhang,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1177/0037549715620501"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/SIMULATION", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1177/0037549715620501", "name": "item", "description": "10.1177/0037549715620501", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1177/0037549715620501"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2015-12-16T00:00:00Z"}}, {"id": "10.1177/008124638301300302", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:55Z", "type": "Journal Article", "created": "2013-03-08", "title": "Person-Environment Mismatch: Does One Square the Hole or round the Peg?", "description": "

In this paper a look is taken at organizational effectiveness in terms of a Person-Environment (P-E) match and it is argued that the various approaches to the improvement of on-the-job performance focus either on changes at the individual level (\u2018fitting the man to the job\u2019) or at the organizational level (\u2018fitting the job to the man\u2019). Furthermore it is also argued that these interventions occur at either a global preventative level or at a localized remedial level. The resulting 2 \u00d7 2 classification of four basic strategies for enhancing P-E match are discussed and evaluated. It is concluded that in a mixed-economy situation, such as occurs in South Africa at present, attention should be given to adapting organizational structures and job processes to make them more compatible with the needs and values of the local work force.

", "keywords": ["8. Economic growth", "0502 economics and business", "05 social sciences", "0501 psychology and cognitive sciences"], "contacts": [{"organization": "Alwyn P. Moerdyk", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1177/008124638301300302"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/South%20African%20Journal%20of%20Psychology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1177/008124638301300302", "name": "item", "description": "10.1177/008124638301300302", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1177/008124638301300302"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "1983-09-01T00:00:00Z"}}, {"id": "10.1177/0170840620980232", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:55Z", "type": "Journal Article", "created": "2020-11-26", "title": "Forging Forms of Authority through the Sociomateriality of Food in Partial Organizations", "description": "

This study theorizes on the sociomateriality of food in authority-building processes of partial organizations by exploring alternative food networks (AFNs). Through the construction of arenas for food provisioning, AFNs represent grassroots collectives that deliberately differentiate their practices from mainstream forms of food provisioning. Based on a sequential mixed-methods analysis of 24 AFNs, where an inductive chronological analysis is followed by a qualitative comparative analysis (QCA), we found that the entanglements between participants\uffe2\uff80\uff99 food provisioning practices and food itself shape how authority emerges in AFNs. Food generates biological, physiological and social struggles for AFN participants who, in turn, respond by embracing or avoiding them. As an outcome, most AFNs tend to bureaucratize over time according to four identified patterns while a few idiosyncratically build a more shared basis of authority. We conclude that the sociomateriality of food plays an important yet indirect role in understanding why and how food provisioning arenas re-organize and forge their forms of authority over time.

", "keywords": ["Partial organization", "Alternative food networks", "sociomateriality of food", "550", "Sociomateriality", "grassroots collectives", "0502 economics and business", "05 social sciences", "alternative food networks", "authority-building processes", "Grassroots collectives", "partial organization", "Authority-building processes"]}, "links": [{"href": "http://journals.sagepub.com/doi/pdf/10.1177/0170840620980232"}, {"href": "https://doi.org/10.1177/0170840620980232"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Organization%20Studies", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1177/0170840620980232", "name": "item", "description": "10.1177/0170840620980232", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1177/0170840620980232"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-01-17T00:00:00Z"}}, {"id": "10.1186/s12934-021-01520-7", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-08-24T16:17:56Z", "type": "Journal Article", "created": "2021-01-11", "title": "Multi-pathogen Infections and Alzheimer’s Disease", "description": "

Alzheimer’s disease (AD) is a chronic neurodegenerative disease associated with the overproduction and accumulation of amyloid-β peptide and hyperphosphorylation of tau proteins in the brain. Despite extensive research on the amyloid-based mechanism of AD pathogenesis, the underlying cause of AD remains poorly understood. No disease-modifying therapies currently exist, and numerous clinical trials have failed to demonstrate any benefits. The recent discovery that the amyloid-β peptide has antimicrobial activities supports the possibility of an infectious aetiology of AD and suggests that amyloid-β plaque formation might be induced by infection. AD patients have a weakened blood-brain barrier and immune system and are thus at elevated risk of microbial infections. Such infections can cause chronic neuroinflammation, production of the antimicrobial amyloid-β peptide, and neurodegeneration. Various pathogens, including viruses, bacteria, fungi, and parasites have been associated with AD. Most research in this area has focused on individual pathogens, with herpesviruses and periodontal bacteria being most frequently implicated. The purpose of this review is to highlight the potential role of multi-pathogen infections in AD. Recognition of the potential coexistence of multiple pathogens and biofilms in AD's aetiology may stimulate the development of novel approaches to its diagnosis and treatment. Multiple diagnostic tests could be applied simultaneously to detect major pathogens, followed by anti-microbial treatment using antiviral, antibacterial, antifungal, and anti-biofilm agents.

", "keywords": ["0301 basic medicine", "Bacteria", "Review", "Antifungal", "Microbiology", "Antiviral Agents", "QR1-502", "3. Good health", "Antibacterial", "Anti-biofilm", "03 medical and health sciences", "0302 clinical medicine", "Anti-Infective Agents", "Alzheimer Disease", "Biofilms", "Animals", "Humans", "Antiviral", "Alzheimer\u2019s disease"]}, "links": [{"href": "http://link.springer.com/content/pdf/10.1186/s12934-021-01520-7.pdf"}, {"href": "https://doi.org/10.1186/s12934-021-01520-7"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microbial%20Cell%20Factories", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1186/s12934-021-01520-7", "name": "item", "description": "10.1186/s12934-021-01520-7", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1186/s12934-021-01520-7"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-01-11T00:00:00Z"}}, {"id": "10.1186/s13568-024-01764-7", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:56Z", "type": "Journal Article", "created": "2024-09-28", "title": "Metagenomic analyses of a consortium for the bioremediation of hydrocarbons polluted soils", "description": "Abstract

A bacterial consortium was isolated from a soil in Noblejas (Toledo, Spain) with a long history of mixed hydrocarbons pollution, by enrichment cultivation. Serial cultures of hydrocarbons polluted soil samples were grown in a minimal medium using diesel (1\uffc2\uffa0mL/L) as the sole carbon and energy source. The bacterial composition of the Noblejas Consortium (NC) was determined by sequencing 16S rRNA gene amplicon libraries. The consortium contained around 50 amplicon sequence variants (ASVs) and the major populations belonged to the genera Pseudomonas, Enterobacter, Delftia, Stenotrophomonas, Achromobacter, Acinetobacter, Novosphingobium, Allorhizobium-Neorhizobium-Rhizobium, Ochrobactrum and Luteibacter. All other genera were below 1%. Metagenomic analysis of NC has shown a high abundance of genes encoding enzymes implicated in aliphatic and (poly) aromatic hydrocarbons degradation, and almost all pathways for hydrocarbon degradation are represented. Metagenomic analysis has also allowed the construction of metagenome assembled genomes (MAGs) for the major players of NC. Metatranscriptomic analysis has shown that several of the ASVs are implicated in hydrocarbon degradation, being Pseudomonas, Acinetobacter and Delftia the most active populations.Anaerobic digestion (AD) of protein-rich grass silage was performed in experimental two-stage two-phase biogas reactor systems at low vs. increased organic loading rates (OLRs) under mesophilic (37\uffe2\uff80\uff89\uffc2\uffb0C) and thermophilic (55\uffe2\uff80\uff89\uffc2\uffb0C) temperatures. To follow the adaptive response of the biomass-attached cellulolytic/hydrolytic biofilms at increasing ammonium/ammonia contents, genome-centered metagenomics and transcriptional profiling based on metagenome assembled genomes (MAGs) were conducted.

Results

In total, 78 bacterial and archaeal MAGs representing the most abundant members of the communities, and featuring defined quality criteria were selected and characterized in detail. Determination of MAG abundances under the tested conditions by mapping of the obtained metagenome sequence reads to the MAGs revealed that MAG abundance profiles were mainly shaped by the temperature but also by the OLR. However, the OLR effect was more pronounced for the mesophilic systems as compared to the thermophilic ones. In contrast, metatranscriptome mapping to MAGs subsequently normalized to MAG abundances showed that under thermophilic conditions, MAGs respond to increased OLRs by shifting their transcriptional activities mainly without adjusting their proliferation rates. This is a clear difference compared to the behavior of the microbiome under mesophilic conditions. Here, the response to increased OLRs involved adjusting of proliferation rates and corresponding transcriptional activities. The analysis led to the identification of MAGs positively responding to increased OLRs. The most outstanding MAGs in this regard, obviously well adapted to higher OLRs and/or associated conditions, were assigned to the order Clostridiales (Acetivibrio sp.) for the mesophilic biofilm and the orders Bacteroidales (Prevotella sp. and an unknown species), Lachnospirales (Herbinix sp. and Kineothrix sp.) and Clostridiales (Clostridium sp.) for the thermophilic biofilm. Genome-based metabolic reconstruction and transcriptional profiling revealed that positively responding MAGs mainly are involved in hydrolysis of grass silage, acidogenesis and / or\uffc2\uffa0acetogenesis.

Conclusions

An integrated -omics approach enabled the identification of new AD biofilm keystone species featuring outstanding performance under stress conditions such as increased OLRs. Genome-based knowledge on the metabolic potential and transcriptional activity of responsive microbiome members will contribute to the development of improved microbiological AD management strategies for biomethanation of renewable biomass.

", "keywords": ["Integrated -omics", "Bioconversion", "0301 basic medicine", "570", "Polyomics", "Integrated-omics", "Biogas", "Microbiology", "7. Clean energy", "03 medical and health sciences", "Anaerobic digestion", "GE1-350", "2. Zero hunger", "0303 health sciences", "Metagenome assembled genomes", "Microbial community structure", "15. Life on land", "QR1-502", "6. Clean water", "3. Good health", "Environmental sciences", "Metagenome assembled genomes", " Integrated -omics", " Polyomics", " Anaerobic digestion", " Biogas", " Bioconversion", " Microbial community structure", " Methane", " Metabolic activity", "13. Climate action", "Metabolic activity", "Methane", "Research Article"]}, "links": [{"href": "http://link.springer.com/content/pdf/10.1186/s40793-020-00354-x.pdf"}, {"href": "https://doi.org/10.1186/s40793-020-00354-x"}, {"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/s40793-020-00354-x", "name": "item", "description": "10.1186/s40793-020-00354-x", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1186/s40793-020-00354-x"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-03-02T00:00:00Z"}}, {"id": "10.1186/s40793-025-00667-9", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:57Z", "type": "Journal Article", "created": "2025-01-18", "title": "Bioinoculant-induced plant resistance is modulated by interactions with resident soil microbes", "description": "BACKGROUND: Entomopathogenic fungi are increasingly used as bio-inoculants to enhance crop growth and resistance. When applied to rhizosphere soil, they interact with resident soil microbes, which can affect their ability to colonize and induce resistance in plants as well as modify the structure of the resident soil microbiome, either directly through interactions in the rhizosphere or indirectly, mediated by the plant. The extent to which such direct versus indirect interactions between bio-inoculants and soil microbes impact microbe-induced resistance in crops remains unclear. This study uses a split-root system to examine the effects of direct versus indirect (plant-mediated) interactions between an entomopathogenic fungus, Metarhizium brunneum, and resident soil microbes on induced resistance in tomato against two-spotted spider mites. Additionally, the study explores how these interactions influence the composition and diversity of soil fungal and bacterial communities. RESULTS: Resident soil microbes reduced the efficacy of M. brunneum to induce resistance against spider mites. This reduction occurred not only when resident microbes directly interacted with the bio-inoculant but also when they were spatially separated within the root system, indicating plant-mediated effects. M. brunneum inoculation did not affect rhizosphere microbial diversity but led to changes in fungal and bacterial community composition, even when these communities were not in direct contact with the inoculant. CONCLUSIONS: This research highlights the impact of both direct and plant-mediated interactions between bio-inoculants and resident soil microbes on bio-inoculant-induced pest resistance in crop plants and underscores the importance of assessing potential adverse effects of fungal bio-inoculants on native soil communities. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s40793-025-00667-9.", "keywords": ["Environmental sciences", "Entomopathogenic fungi", "Research", "Spider mites", "GE1-350", "Arthropod pests", "Soil microbial communities", "Microbiology", "Tomato", "QR1-502"], "contacts": [{"organization": "Rasool, Shumaila, Groos, Manon, Hannula, S. Emilia, Biere, Arjen,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1186/s40793-025-00667-9"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Microbiome", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1186/s40793-025-00667-9", "name": "item", "description": "10.1186/s40793-025-00667-9", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1186/s40793-025-00667-9"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2025-01-18T00:00:00Z"}}, {"id": "10.1186/s40793-025-00715-4", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:17:57Z", "type": "Journal Article", "created": "2025-05-21", "title": "Plant microbiome responses to bioinoculants and volatiles", "description": "Abstract Background

There is an increase in the adoption of biological solutions for plant production as a means of attaining sustainable agriculture. A detailed understanding of the influence of specific bioinoculants and their volatile metabolites on native soil and plant microbiomes can improve future microbiome management practices.

Results

Here, we examined the effect of bacterial inoculants and volatile compounds as individual and combined treatments on apple plant and soil microbiome. The study used specially designed microcosms that facilitated the separation of the different plant compartments. A compartment- and soil-specific effect of treatments on the native soil and plant microbiome was observed. The live bacterial inoculants as compared to their volatiles had a stronger effect on the plant and soil microbiome, particularly the root microbial community. The combined effect of bacterial inoculants was higher compared to volatiles (R2\uffe2\uff80\uff89=\uffe2\uff80\uff895% vs. 3%). Treatment-specific effects were observed, like the influence of 2-butanone on the phyllosphere bacterial diversity, and an increase in fungal richness in Serratia-treated soils.

Conclusions

Among the examined treatments, inoculation with bacteria compared to volatile metabolites induced more significant shifts within the plant and soil microbiome. This observation has implications regarding the merits of applying living microorganisms. The findings highlight the potential of microbiome management approaches for enhancing microbiota functions.

", "keywords": ["Microcosm experiments", "Environmental sciences", "Plant microbiome", "Research", "Sustainable agriculture", "GE1-350", "Volatile organic compounds", "Microbiology", "Bioinoculants", "QR1-502", "Amplicon sequencing"]}, "links": [{"href": "https://doi.org/10.1186/s40793-025-00715-4"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Microbiome", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1186/s40793-025-00715-4", "name": "item", "description": "10.1186/s40793-025-00715-4", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1186/s40793-025-00715-4"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2025-05-21T00:00:00Z"}}, {"id": "10.21203/rs.3.rs-25108/v1", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:18:32Z", "type": "Journal Article", "created": "2020-05-01", "title": "Trichomes form genotype-specific microbial hotspots in the phyllosphere of tomato", "description": "Abstract

Background The plant phyllosphere is a well-studied habitat characterized by low nutrient availability and high community dynamics. In contrast, plant trichomes, known for their production of a large number of metabolites, are a yet unexplored habitat for microbes. We analyzed the phyllosphere as well as trichomes of two tomato genotypes (Solanum lycopersicum LA4024, S. habrochaites LA1777) by targeting bacterial 16S rRNA gene fragments.Results Leaves, leaves without trichomes, and trichomes alone harbored similar abundances of bacteria (108- 109 16S rRNA gene copy numbers per gram of sample). In contrast, bacterial diversity was found significantly increased in trichome samples (Shannon index: 4.4 vs. 2.5). Moreover, the community composition was significantly different when assessed with beta diversity analysis and corresponding statistical tests. At the bacterial class level, Alphaproteobacteria (23.6%) were significantly increased, whereas Bacilli (8.6%) were decreased in trichomes. The bacterial family Sphingomonadacea (8.4%) was identified as the most prominent, trichome-specific taxa; Burkholderiaceae and Actinobacteria showed similar pattern. Moreover, Sphingomonas was identified as a central element in the core microbiome of trichome samples, while distinct low-abundant bacterial families including Hymenobacteraceae and Alicyclobacillaceae were exclusively found in trichome samples. Niche preferences were statistically significant for both genotypes and genotype-specific enrichments were further observed.Conclusion Our results provide first evidence of a highly specific trichome microbiome in tomato and show the importance of micro-niches for the structure of bacterial communities on leaves. These findings provide further clues for breeding, plant pathology and protection as well as so far unexplored natural pathogen defense strategies.

", "keywords": ["0301 basic medicine", "2. Zero hunger", "Plant microhabitat", "0303 health sciences", "Plant microbiome", "Trichomes", "15. Life on land", "Microbiology", "Bacterial communities", "QR1-502", "Environmental sciences", "03 medical and health sciences", "Solanum lycopersicum", "Solanum habrochaites", "plant microbiome", " bacterial communities", " plant-microbe interactions", " Solanum habrochaites", " Solanum lycopersicum", " plant microhabitat", " phyllosphere", " trichomes", "GE1-350", "Phyllosphere", "Plant-microbe interactions", "Research Article"]}, "links": [{"href": "https://link.springer.com/content/pdf/10.1186/s40793-020-00364-9.pdf"}, {"href": "https://doi.org/10.21203/rs.3.rs-25108/v1"}, {"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": "10.21203/rs.3.rs-25108/v1", "name": "item", "description": "10.21203/rs.3.rs-25108/v1", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.21203/rs.3.rs-25108/v1"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-05-01T00:00:00Z"}}, {"id": "10.20955/r.100.237-57", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:18:31Z", "type": "Journal Article", "created": "2018-07-19", "title": "Top Earners: Cross-Country Facts", "description": "We provide a common set of life cycle earnings statistics based on administrative data from the United States, Canada, Denmark, and Sweden. We find three qualitative patterns, which are common across countries. First, top-earnings inequality increases over the working lifetime. Second, the extreme right tail of the earnings distribution becomes thicker with age over the working lifetime. Third, top lifetime earners exhibit dramatic earnings growth over their working lifetime. Models of top earners should account for these three patterns and, importantly, for how they quantitatively differ across countries.", "keywords": ["top earners", "inequality", "ddc:330", "top incomes", "05 social sciences", "1. No poverty", "Top incomes", "Inequality", "Earnings", "0502 economics and business", "8. Economic growth", "D91", "H21", "J31", "D31", "Top earners"]}, "links": [{"href": "https://doi.org/10.20955/r.100.237-57"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Review", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.20955/r.100.237-57", "name": "item", "description": "10.20955/r.100.237-57", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.20955/r.100.237-57"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-01-01T00:00:00Z"}}, {"id": "10.17221/124/2011-agricecon", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:18:21Z", "type": "Journal Article", "created": "2018-02-11", "title": "&Nbsp; Biofuels: Policies And Impacts", "description": "This paper provides a general overview of the technological, social, environmental, economical, and policy considerations related to biofuels. While the biofuel production and consumption exhibited significant increase over the first decade of the new millennium, this and further increases in biofuel production are driven primarily by government policies. Currently available first generation biofuels are not economically viable in the absence of fiscal incentives or high oil prices (with a few exceptional cases, especially in the case of the most developed Brazilian sugarcane production of ethanol). Also the environmental impacts of biofuels as an alternative to fossil fuels are quite ambiguous. The literature review of the most recent economic models dealing with biofuels and their economic impacts provides a distinction between structural and reduced form models. The discussion of structural models centres primarily on computable general equilibrium (CGE) models. The review of reduced models is structured toward the time series analysis approach to the dependencies between prices of biofuels, prices of agricultural commodities used for the biofuel production and prices of the fossil fuels.", "keywords": ["S", "13. Climate action", "0502 economics and business", "05 social sciences", "8. Economic growth", "0202 electrical engineering", " electronic engineering", " information engineering", "biodiesel", "Agriculture", "ethanol", "02 engineering and technology", "7. Clean energy", "biofuels"], "contacts": [{"organization": "Ladislav Kristoufek, David Zilberman, Karel Janda,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.17221/124/2011-agricecon"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Agricultural%20Economics%20%28Zem%C4%9Bd%C4%9Blsk%C3%A1%20ekonomika%29", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.17221/124/2011-agricecon", "name": "item", "description": "10.17221/124/2011-agricecon", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.17221/124/2011-agricecon"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2012-08-31T00:00:00Z"}}, {"id": "10.18461/pfsd.2019.1907", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:18:25Z", "type": "Journal Article", "title": "CONSUMER INTEREST, ATTITUDE AND BEHAVIOR TOWARD A SUSTAINABLE TOMATO", "description": "Open AccessThe steady increase in the consumption of fresh and processed tomatoes is threatening environmental sustainability, as water and fertilizers, two crucial production inputs, are becoming less accessible. To this purpose, the research project TomRes funded by the European Commission H2020 research and innovation programme, is currently undergoing to develop an environmentally sustainable fresh tomato. It is thus of paramount importance to understand if final consumers are willing to accept such a potential sustainable tomato and, may be more importantly, if consumers\u2019 interests and positive attitude towards this product will lead to the decision to purchase. Hence, in this study, we exploit a sample of Italian consumers who responded to a web-survey to analyze the existence of the interest-attitude-behavior gap as well as its main determinants. Our results confirm the existence of this gap in line with other sustainable consumption products.", "keywords": ["2. Zero hunger", "Tomato; sustainability; gap attitude consumer behavior", "0502 economics and business", "05 social sciences", "12. Responsible consumption"], "contacts": [{"organization": "M. T. Trentinaglia De Daverio, T. Mancuso, M. Peri, L. Baldi,", "roles": ["creator"]}]}, "links": [{"href": "https://iris.unito.it/bitstream/2318/1718491/1/Trentinaglia-Baldi%20%282019%29%20Tomato%20sustainability_consumer.pdf"}, {"href": "https://doi.org/10.18461/pfsd.2019.1907"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/International%20Journal%20on%20Food%20System%20Dynamics", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.18461/pfsd.2019.1907", "name": "item", "description": "10.18461/pfsd.2019.1907", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.18461/pfsd.2019.1907"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-01-01T00:00:00Z"}}, {"id": "10.60692/xntey-14051", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:21:31Z", "type": "Journal Article", "created": "2022-04-26", "title": "Hierarquiza\u00e7\u00e3o de melhores ligantes a serem aplicados na imprima\u00e7\u00e3o betuminosa de rodovias em fun\u00e7\u00e3o de caracter\u00edsticas tecnol\u00f3gicas e ambientais", "description": "

A busca pela compreens\u00e3o do comportamento dos ligantes menos poluentes quando comparado ao asfalto dilu\u00eddo de petr\u00f3leo (CM-30) para servi\u00e7o de imprima\u00e7\u00e3o motivou esta pesquisa. Assim, hierarquizou-se ligantes comerciais e alternativos aplic\u00e1veis em servi\u00e7os de imprima\u00e7\u00e3o pelos crit\u00e9rios tecnol\u00f3gicos e ambientais. Para tanto, verificou-se os par\u00e2metros: penetra\u00e7\u00e3o, coes\u00e3o, ader\u00eancia, desgaste superficial e ambiental de bases imprimadas com solos diferentes, usando-se o CM-30 como refer\u00eancia e seis ligantes alternativos: G8, G14, G15, G17, G18 e uma emuls\u00e3o especial para imprima\u00e7\u00e3o - E1. Na base arenosa, o tipo de fluido preponderou sobre os par\u00e2metros avaliados. J\u00e1 na base argilosa, varia\u00e7\u00f5es de umidade alteraram esses par\u00e2metros. Assim, G14 apresentou-se promissor frente ao CM-30 seguido dos ligantes G8 e G18. Entretanto, o ligante G18 se mostrou invi\u00e1vel pelo gasto de energia para sua aplica\u00e7\u00e3o, cerca de 120\u00b0. Na an\u00e1lise ambiental, o G8 emitiu menos vol\u00e1t\u00e9is que o CM-30, sendo t\u00e9cnica e ambientalmente mais autossustent\u00e1vel.

", "keywords": ["TA1001-1280", "Automated Pavement Inspection and Maintenance", "Physics", "05 social sciences", "Seismic Design and Analysis of Underground Structures", "FOS: Humanities", "01 natural sciences", "Transportation engineering", "Humanities", "Engineering", "Imprima\u00e7\u00e3o", "CM-30", "Physical Sciences", "0502 economics and business", "Sustentabilidade", "Pavimenta\u00e7\u00e3o", "Bitumen Modification", "Asphalt Materials and Technology", "Art", "Civil and Structural Engineering", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.60692/xntey-14051"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Transportes", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.60692/xntey-14051", "name": "item", "description": "10.60692/xntey-14051", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.60692/xntey-14051"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-04-26T00:00:00Z"}}, {"id": "10.25674/so92iss2pp121", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:18:58Z", "type": "Journal Article", "title": "Lessons from the WBF2020: extrinsic and intrinsic value of soil organisms", "description": "Following our participation in the first World Biodiversity Forum in Davos, Switzerland, we provide a summary of the main themes of the conference, as well as an overview of the session that was focused on soil biodiversity. One of the main themes of the conference was the valuation of biodiversity and what contributes to the value of biodiversity. In this article we explore whether we should move away from the notion that we can only 'sell' soil biodiversity based on the function and services it provides, and rather shift towards valuing soil biodiversity based on its intrinsic value and our relationship with it.", "keywords": ["0301 basic medicine", "0303 health sciences", "ecosystem functions and services", "Biodiversity", "15. Life on land", "Microbiology", "QR1-502", "03 medical and health sciences", "QL1-991", "13. Climate action", "intrinsic value", "world biodiversity forum", "Zoology", "valuing soil biodiversity", "Taxonomy"]}, "links": [{"href": "https://doi.org/10.25674/so92iss2pp121"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Soil%20organisms", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.25674/so92iss2pp121", "name": "item", "description": "10.25674/so92iss2pp121", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.25674/so92iss2pp121"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-01-01T00:00:00Z"}}, {"id": "10.2139/ssrn.1703540", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:18:49Z", "type": "Journal Article", "created": "2012-01-05", "title": "Public Pensions and Labor Supply Over the Life Cycle", "description": "In order to remain fiscally solvent, governments of many countries have reformed their public pension schemes to encourage labor supply at older ages. These reforms include reductions in the generosity of public pensions and reduced penalties for working past the normal retirement age. In this paper, we consider how reforms to public pension systems affect labor supply over the life cycle. We put the recent empirical evidence on the effect of government pensions on labor supply in a life cycle context, and we present evidence on the effectiveness of tax reforms for stimulating labor supply over the life cycle. Our main conclusion is that the labor supply of older workers is responsive to changes in retirement incentives. The labor supply of younger workers is less responsive. Thus the trend towards lower taxes on older workers in many developed countries should continue to fuel their trend towards later retirement.", "keywords": ["ddc:330", "8. Economic growth", "0502 economics and business", "05 social sciences", "Labor supply ; Pensions ; Retirement", "1. No poverty"]}, "links": [{"href": "http://www.chicagofed.org/digital_assets/publications/working_papers/2010/wp2010_09.pdf"}, {"href": "https://doi.org/10.2139/ssrn.1703540"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/SSRN%20Electronic%20Journal", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.2139/ssrn.1703540", "name": "item", "description": "10.2139/ssrn.1703540", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.2139/ssrn.1703540"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2010-01-01T00:00:00Z"}}, {"id": "10.2307/203364", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:18:52Z", "type": "Journal Article", "created": "2006-04-24", "title": "Competition and Coercion: Blacks in the American Economy, 1865-1914", "keywords": ["0502 economics and business", "05 social sciences", "0506 political science"], "contacts": [{"organization": "Alan L. Olmstead, Robert Higgs,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.2307/203364"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20Interdisciplinary%20History", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.2307/203364", "name": "item", "description": "10.2307/203364", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.2307/203364"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "1979-01-01T00:00:00Z"}}, {"id": "10.25674/so91200", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:18:58Z", "type": "Journal Article", "title": "Soil Organisms - an international open access journal on the taxonomic and functional biodiversity in the soil", "description": "Biodiversity change", "keywords": ["open access", "0301 basic medicine", "2. Zero hunger", "0303 health sciences", "Biodiversity", "soil organisms", "15. Life on land", "Microbiology", "QR1-502", "03 medical and health sciences", "QL1-991", "13. Climate action", "Zoology", "Taxonomy"]}, "links": [{"href": "https://doi.org/10.25674/so91200"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Soil%20organisms", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.25674/so91200", "name": "item", "description": "10.25674/so91200", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.25674/so91200"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-01-01T00:00:00Z"}}, {"id": "10.25674/so91201", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:18:58Z", "type": "Journal Article", "title": "Testing soil nematode extraction efficiency using different variations of the Baermann-funnel method", "description": "soil organisms | comparability | reproducibility | extraction methods", "keywords": ["extraction methods", "QL1-991", "comparability", "Biodiversity", "soil organisms", "15. Life on land", "reproducibility", "Microbiology", "Zoology", "QR1-502", "Taxonomy"]}, "links": [{"href": "https://doi.org/10.25674/so91201"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Soil%20organisms", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.25674/so91201", "name": "item", "description": "10.25674/so91201", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.25674/so91201"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-01-01T00:00:00Z"}}, {"id": "10.3389/fmicb.2024.1505220", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:19:04Z", "type": "Journal Article", "created": "2024-10-30", "title": "Editorial: The impact of environmentally friendly agricultural practices on soil microbiome", "keywords": ["VOCs; biocontrol; biofertilizer; fungi; plant growth-promoting rhizobacteria (PGPR)", "biofertilizer", "VOCs", "biocontrol", "fungi", "plant growth-promoting rhizobacteria (PGPR)", "Microbiology", "QR1-502"], "contacts": [{"organization": "Loredana Canfora, Massimo Pugliese, Massimo Pugliese, Ewa Maria Furmanczyk,", "roles": ["creator"]}]}, "links": [{"href": "https://iris.unito.it/bitstream/2318/2041377/1/fmicb-15-1505220.pdf"}, {"href": "https://doi.org/10.3389/fmicb.2024.1505220"}, {"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.2024.1505220", "name": "item", "description": "10.3389/fmicb.2024.1505220", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2024.1505220"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-10-30T00:00:00Z"}}, {"id": "10.3389/fmicb.2013.00078", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:19:02Z", "type": "Journal Article", "created": "2013-04-09", "title": "Changes In Fungal Community Composition In Response To Elevated Atmospheric Co2 And Nitrogen Fertilization Varies With Soil Horizon", "description": "Increasing levels of atmospheric carbon dioxide (CO2) and rates of nitrogen (N)-deposition to forest ecosystems are predicted to alter the structure and function of soil fungal communities, but the spatially heterogeneous distribution of soil fungi has hampered investigations aimed at understanding such impacts. We hypothesized that soil physical and chemical properties and fungal community composition would be differentially impacted by elevated atmospheric CO2 (eCO2) and N-fertilization in spatially separated field samples, in the forest floor, 0-2, 2-5, and 5-10\u2009cm depth intervals in a loblolly pine Free-Air Carbon Dioxide Enrichment (FACE) experiment. In all soils, quantitative PCR-based estimates of fungal biomass were highest in the forest floor. Fungal richness, based on pyrosequencing of the fungal ribosomal large subunit gene, increased in response to N-fertilization in 0-2\u2009cm and forest floor intervals. Composition shifted in forest floor, 0-2 and 2-5\u2009cm intervals in response to N-fertilization, but the shift was most distinct in the 0-2\u2009cm interval, in which the largest number of statistically significant changes in soil chemical parameters (i.e., phosphorus, organic matter, calcium, pH) was also observed. In the 0-2\u2009cm interval, increased recovery of sequences from the Thelephoraceae, Tricholomataceae, Hypocreaceae, Clavicipitaceae, and Herpotrichiellaceae families and decreased recovery of sequences from the Amanitaceae correlated with N-fertilization. In this same depth interval, Amanitaceae, Tricholomataceae, and Herpotriciellaceae sequences were recovered less frequently from soils exposed to eCO2 relative to ambient conditions. These results demonstrated that vertical stratification should be taken into consideration in future efforts to elucidate environmental impacts on fungal communities and their feedbacks on ecosystem processes.", "keywords": ["elevated CO2", "soil chemistry", "basidiomycota", "Basidiomycota", "nitrogen fertilization", "04 agricultural and veterinary sciences", "Soil Chemistry", "15. Life on land", "agaricales", "Microbiology", "QR1-502", "forest floor", "Ascomycota", "13. Climate action", "soil fungi", "0401 agriculture", " forestry", " and fisheries", "Agaricales"]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2013.00078"}, {"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.2013.00078", "name": "item", "description": "10.3389/fmicb.2013.00078", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2013.00078"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-01-01T00:00:00Z"}}, {"id": "10.3389/fmicb.2013.00146", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:19:02Z", "type": "Journal Article", "created": "2013-06-11", "description": "The activities of extracellular enzymes, the proximate agents of decomposition in soils, are known to depend strongly on temperature, but less is known about how they respond to changes in precipitation patterns, and the interaction of these two components of climate change. Both enzyme production and turnover can be affected by changes in temperature and soil moisture, thus it is difficult to predict how enzyme pool size may respond to altered climate. Soils from the Boston-Area Climate Experiment (BACE), which is located in an old field (on abandoned farmland), were used to examine how climate variables affect enzyme activities and microbial biomass carbon (MBC) in different seasons and in soils exposed to a combination of three levels of precipitation treatments (ambient, 150% of ambient during growing season, and 50% of ambient year-round) and four levels of warming treatments (unwarmed to ~4\u00b0C above ambient) over the course of a year. Warming, precipitation and season had very little effect on potential enzyme activity. Most models assume that enzyme dynamics follow microbial biomass, because enzyme production should be directly controlled by the size and activity of microbial biomass. We observed differences among seasons and treatments in mass-specific potential enzyme activity, suggesting that this assumption is invalid. In June 2009, mass-specific potential enzyme activity, using chloroform fumigation-extraction MBC, increased with temperature, peaking under medium warming and then declining under the highest warming. This finding suggests that either enzyme production increased with temperature or turnover rates decreased. Increased maintenance costs associated with warming may have resulted in increased mass-specific enzyme activities due to increased nutrient demand. Our research suggests that allocation of resources to enzyme production could be affected by climate-induced changes in microbial efficiency and maintenance costs.", "keywords": ["2. Zero hunger", "570", "decomposition", "550", "microbial biomass", "Nitrogen", "carbon", "enzymes", "temperature", "04 agricultural and veterinary sciences", "precipitation", "15. Life on land", "Microbiology", "nitrogen", "Carbon", "QR1-502", "6. Clean water", "Enzymes", "13. Climate action", "0401 agriculture", " forestry", " and fisheries"]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2013.00146"}, {"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.2013.00146", "name": "item", "description": "10.3389/fmicb.2013.00146", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2013.00146"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-01-01T00:00:00Z"}}, {"id": "10.3389/fmicb.2014.00516", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:19:02Z", "type": "Journal Article", "created": "2014-10-02", "title": "Soil Bacterial Community Composition Altered By Increased Nutrient Availability In Arctic Tundra Soils", "description": "The pool of soil organic carbon (SOC) in the Arctic is disproportionally large compared to those in other biomes. This large quantity of SOC accumulated over millennia due to slow rates of decomposition relative to net primary productivity. Decomposition is constrained by low temperatures and nutrient concentrations, which limit soil microbial activity. We investigated how nutrients limit bacterial and fungal biomass and community composition in organic and mineral soils within moist acidic tussock tundra ecosystems. We sampled two experimental arrays of moist acidic tussock tundra that included fertilized and non-fertilized control plots. One array included plots that had been fertilized annually since 1989 and the other since 2006. Fertilization significantly altered overall bacterial community composition and reduced evenness, to a greater degree in organic than mineral soils, and in the 1989 compared to the 2006 site. The relative abundance of copiotrophic \u03b1-Proteobacteria and \u03b2-Proteobacteria was higher in fertilized than control soils, and oligotrophic Acidobacteria were less abundant in fertilized than control soils at the 1989 site. Fungal community composition was less sensitive to increased nutrient availability, and fungal responses to fertilization were not consistent between soil horizons and sites. We detected two ectomycorrhizal genera, Russula and Cortinarius spp., associated with shrubs. Their relative abundance was not affected by fertilization despite increased dominance of their host plants in the fertilized plots. Our results indicate that fertilization, which has been commonly used to simulate warming in Arctic tundra, has limited applicability for investigating fungal dynamics under warming.", "keywords": ["2. Zero hunger", "0301 basic medicine", "0303 health sciences", "550", "Bacteria", "Nitrogen", "Fungi", "Phosphorus", "15. Life on land", "Microbiology", "nitrogen", "QR1-502", "soil", "03 medical and health sciences", "fertilization", "13. Climate action", "Fertilization", "Mycorrhizae", "fungi", "Arctic tundra", "phosphorus", "bacteria", "mycorrhizae"]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2014.00516"}, {"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.2014.00516", "name": "item", "description": "10.3389/fmicb.2014.00516", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2014.00516"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2014-10-02T00:00:00Z"}}, {"id": "10.3389/fmicb.2015.00385", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:19:02Z", "type": "Journal Article", "created": "2015-05-05", "description": "Global environmental change is predicted to have major consequences for carbon cycling and the functioning of soil ecosystems. However, we have limited knowledge about its impacts on the microorganisms, which act as a 'valve' between carbon sequestered in soils versus released into the atmosphere. In this study we examined microbial response to continuous 9-years manipulation of three global change factors (elevated CO2, warming, and nitrogen deposition), singly and in combination using two methods: lipid and amino sugar biomarkers at the Jasper Ridge Global Change Experiment (JRGCE). The two methods yielded important distinctions. There were limited microbial lipid differences, but many significant effects for microbial amino sugars. We found that CO2 was not a direct factor influencing soil carbon and major amino sugar pools, but had a positive impact on bacterial-derived muramic acid. Likewise, warming and nitrogen deposition appeared to enrich residues specific to bacteria despite an overall depletion in total amino sugars. The results indicate that elevated CO2, warming, and nitrogen deposition all appeared to increase bacterial-derived residues, but this accumulation effect was far offset by a corresponding decline in fungal residues. The sensitivity of microbial residue biomarker amino sugars to warming and nitrogen deposition may have implications for our predictions of global change impacts on soil stored carbon.", "keywords": ["2. Zero hunger", "elevated CO2", "warming", "microbial biomass", "soil carbon stabilization", "microbial residue", "04 agricultural and veterinary sciences", "Lipid", "15. Life on land", "Microbiology", "01 natural sciences", "QR1-502", "nitrogen deposition", "Amino sugar", "lipid", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "amino sugar", "0105 earth and related environmental sciences"], "contacts": [{"organization": "Chao eLIANG, Chao eLIANG, Jessica eGutknecht, Teri eBalser,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2015.00385"}, {"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.2015.00385", "name": "item", "description": "10.3389/fmicb.2015.00385", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2015.00385"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2015-05-05T00:00:00Z"}}, {"id": "10.3389/fmicb.2015.00819", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:19:02Z", "type": "Journal Article", "created": "2015-08-14", "description": "The N cycle of arid ecosystems is influenced by low soil organic matter, high soil pH, and extremes in water potential and temperature that lead to open canopies and development of biological soil crusts (biocrusts). We investigated the effects of N amendment on soil microbial dynamics in a Larrea tridentata-Ambrosia dumosa shrubland site in southern Nevada USA. Sites were fertilized with a NO3-NH4 mix at 0, 7, and 15 kg N ha(-1) y(-1) from March 2012 to March 2013. In March 2013, biocrust (0-0.5 cm) and bulk soils (0-10 cm) were collected beneath Ambrosia canopies and in the interspaces between plants. Biomass responses were assessed as bacterial and fungal SSU rRNA gene copy number and chlorophyll a concentration. Metabolic responses were measured by five ecoenzyme activities and rates of N transformation. By most measures, nutrient availability, microbial biomass, and process rates were greater in soils beneath the shrub canopy compared to the interspace between plants, and greater in the surface biocrust horizon compared to the deeper 10 cm soil profile. Most measures responded positively to experimental N addition. Effect sizes were generally greater for bulk soil than biocrust. Results were incorporated into a meta-analysis of arid ecosystem responses to N amendment that included data from 14 other studies. Effect sizes were calculated for biomass and metabolic responses. Regressions of effect sizes, calculated for biomass, and metabolic responses, showed similar trends in relation to N application rate and N load (rate \u00d7 duration). The critical points separating positive from negative treatment effects were 88 kg ha(-1) y(-1) and 159 kg ha(-1), respectively, for biomass, and 70 kg ha(-1) y(-1) and 114 kg ha(-1), respectively, for metabolism. These critical values are comparable to those for microbial biomass, decomposition rates and respiration reported in broader meta-analyses of N amendment effects in mesic ecosystems. However, large effect sizes at low N addition rates indicate that arid ecosystems are sensitive to modest increments in anthropogenic N deposition.", "keywords": ["2. Zero hunger", "microbial biomass", "arid ecosystems", "04 agricultural and veterinary sciences", "15. Life on land", "Microbiology", "QR1-502", "6. Clean water", "meta-analysis", "nitrogen deposition", "Meta-analysis", "13. Climate action", "ecoenzyme activity", "0401 agriculture", " forestry", " and fisheries", "Arid ecosystems"], "contacts": [{"organization": "Darren R. Sandquist, Jayne Belnap, Jennifer A. Rudgers, Cheryl R. Kuske, Robert L. Sinsabaugh, Noelle G. Martinez,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2015.00819"}, {"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.2015.00819", "name": "item", "description": "10.3389/fmicb.2015.00819", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2015.00819"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2015-08-14T00:00:00Z"}}, {"id": "10.3389/fmicb.2015.00891", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:19:02Z", "type": "Journal Article", "created": "2015-09-04", "title": "Soil Bacterial And Fungal Community Responses To Nitrogen Addition Across Soil Depth And Microhabitat In An Arid Shrubland", "description": "Arid shrublands are stressful environments, typified by alkaline soils low in organic matter, with biologically-limiting extremes in water availability, temperature, and UV radiation. The widely-spaced plants and interspace biological soil crusts in these regions provide soil nutrients in a localized fashion, creating a mosaic pattern of plant- or crust-associated microhabitats with distinct nutrient composition. With sporadic and limited rainfall, nutrients are primarily retained in the shallow surface soil, patterning biological activity. We examined soil bacterial and fungal community responses to simulated nitrogen (N) deposition in an arid Larrea tridentata-Ambrosia dumosa field experiment in southern Nevada, USA, using high-throughput sequencing of ribosomal RNA genes. To examine potential interactions among the N application, microhabitat and soil depth, we sampled soils associated with shrub canopies and interspace biological crusts at two soil depths (0-0.5 or 0-10 cm) across the N-amendment gradient (0, 7, and 15 kg ha(-1) yr(-1)). We hypothesized that localized compositional differences in soil microbiota would constrain the impacts of N addition to a microhabitat distribution that would reflect highly localized geochemical conditions and microbial community composition. The richness and community composition of both bacterial and fungal communities differed significantly by microhabitat and with soil depth in each microhabitat. Only bacterial communities exhibited significant responses to the N addition. Community composition correlated with microhabitat and depth differences in soil geochemical features. Given the distinct roles of soil bacteria and fungi in major nutrient cycles, the resilience of fungi and sensitivity of bacteria to N amendments suggests that increased N input predicted for many arid ecosystems could shift nutrient cycling toward pathways driven primarily by fungal communities.", "keywords": ["2. Zero hunger", "0301 basic medicine", "biological soil crusts", "0303 health sciences", "microhabitat", "soil bacterial community", "dryland", "15. Life on land", "soil fungal community", "Microbiology", "Shrubland", "QR1-502", "6. Clean water", "03 medical and health sciences", "Soil bacterial community", "shrubland", "ribosomal RNA", "global change"], "contacts": [{"organization": "Cheryl R. Kuske, Jayne Belnap, Rebecca C. Mueller,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2015.00891"}, {"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.2015.00891", "name": "item", "description": "10.3389/fmicb.2015.00891", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2015.00891"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2015-09-04T00:00:00Z"}}, {"id": "10.3389/fmicb.2015.01104", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:19:02Z", "type": "Journal Article", "created": "2015-10-14", "title": "Environmental and microbial factors influencing methane and nitrous oxide fluxes in Mediterranean cork oak woodlands: trees make a difference", "description": "Cork oak woodlands (montado) are agroforestry systems distributed all over the Mediterranean basin with a very important social, economic and ecological value. A generalized cork oak decline has been occurring in the last decades jeopardizing its future sustainability. It is unknown how loss of tree cover affects microbial processes that are consuming greenhouse gases in the montado ecosystem. The study was conducted under two different conditions in the natural understory of a cork oak woodland in center Portugal: under tree canopy (UC) and open areas without trees (OA). Fluxes of methane and nitrous oxide were measured with a static chamber technique. In order to quantify methanotrophs and bacteria capable of nitrous oxide consumption, we used quantitative real-time PCR targeting the pmoA and nosZ genes encoding the subunit of particulate methane mono-oxygenase and catalytic subunit of the nitrous oxide reductase, respectively. A significant seasonal effect was found on CH4 and N2O fluxes and pmoA and nosZ gene abundance. Tree cover had no effect on methane fluxes; conversely, whereas the UC plots were net emitters of nitrous oxide, the loss of tree cover resulted in a shift in the emission pattern such that the OA plots were a net sink for nitrous oxide. In a seasonal time scale, the UC had higher gene abundance of Type I methanotrophs. Methane flux correlated negatively with abundance of Type I methanotrophs in the UC plots. Nitrous oxide flux correlated negatively with nosZ gene abundance at the OA plots in contrast to that at the UC plots. In the UC soil, soil organic matter had a positive effect on soil extracellular enzyme activities, which correlated positively with the N2O flux. Our results demonstrated that tree cover affects soil properties, key enzyme activities and abundance of microorganisms and, consequently net CH4 and N2O exchange.", "keywords": ["2. Zero hunger", "0301 basic medicine", "0303 health sciences", "nitrous oxide", "methane", "enzymes", "Nitrous Oxide", "Mediterranean", "15. Life on land", "Microbiology", "QR1-502", "Enzymes", "03 medical and health sciences", "methanotrophs", "nosZ", "13. Climate action", "oak woodland", "Methane", "pmoA"]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2015.01104"}, {"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.2015.01104", "name": "item", "description": "10.3389/fmicb.2015.01104", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2015.01104"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2015-10-14T00:00:00Z"}}, {"id": "10.3389/fmicb.2016.00259", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:19:03Z", "type": "Journal Article", "created": "2016-03-02", "description": "Litter decomposition is an enzymatically-complex process that is mediated by a diverse assemblage of saprophytic microorganisms. It is a globally important biogeochemical process that can be suppressed by anthropogenic N deposition. In a northern hardwood forest ecosystem located in Michigan, USA, 20 years of experimentally increased atmospheric N deposition has reduced forest floor decay and increased soil C storage. Here, we paired extracellular enzyme assays with shotgun metagenomics to assess if anthropogenic N deposition has altered the functional potential of microbial communities inhabiting decaying forest floor. Experimental N deposition significantly reduced the activity of extracellular enzymes mediating plant cell wall decay, which occurred concurrently with changes in the relative abundance of metagenomic functional gene pathways mediating the metabolism of carbohydrates, aromatic compounds, as well as microbial respiration. Moreover, experimental N deposition increased the relative abundance of 50 of the 60 gene pathways, the majority of which were associated with saprotrophic bacteria. Conversely, the relative abundance and composition of fungal genes mediating the metabolism of plant litter was not affected by experimental N deposition. Future rates of atmospheric N deposition have favored saprotrophic soil bacteria, whereas the metabolic potential of saprotrophic fungi appears resilient to this agent of environmental change. Results presented here provide evidence that changes in the functional capacity of saprotrophic soil microorganisms mediate how anthropogenic N deposition increases C storage in soil.", "keywords": ["saprotroph", "2. Zero hunger", "0301 basic medicine", "0303 health sciences", "Climate Change", "C storage", "15. Life on land", "Microbiology", "metagenome", "N deposition", "QR1-502", "03 medical and health sciences", "climate change", "13. Climate action", "Saprotroph", "Metagenome"]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2016.00259"}, {"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.2016.00259", "name": "item", "description": "10.3389/fmicb.2016.00259", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2016.00259"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2016-03-02T00:00:00Z"}}, {"id": "10.3389/fmicb.2016.00376", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:19:03Z", "type": "Journal Article", "created": "2016-04-05", "description": "There has been little study of whether different variants of tropical rainforest have distinct soil microbial communities and levels of diversity. We compared bacterial and fungal community composition and diversity between primary mixed dipterocarp, secondary mixed dipterocarp, white sand heath, inland heath, and peat swamp forests in Brunei Darussalam, Northwest Borneo by analyzing Illumina Miseq sequence data of 16S rRNA gene and ITS1 region. We hypothesized that white sand heath, inland heath and peat swamp forests would show lower microbial diversity and relatively distinct microbial communities (compared to MDF primary and secondary forests) due to their distinctive environments. We found that soil properties together with bacterial and fungal communities varied significantly between forest types. Alpha and beta-diversity of bacteria was highest in secondary dipterocarp and white sand heath forests. Also, bacterial alpha diversity was strongly structured by pH, adding another instance of this widespread pattern in nature. The alpha diversity of fungi was equally high in all forest types except peat swamp forest, although fungal beta-diversity was highest in primary and secondary mixed dipterocarp forests. The relative abundance of ectomycorrhizal (EcM) fungi varied significantly between forest types, with highest relative abundance observed in MDF primary forest. Overall, our results suggest that the soil bacterial and fungal communities in these forest types are to a certain extent predictable and structured by soil properties, but that diversity is not determined by how distinctive the conditions are. This contrasts with the diversity patterns seen in rainforest trees, where distinctive soil conditions have consistently lower tree diversity.", "keywords": ["0301 basic medicine", "0303 health sciences", "southeast asia", "microbial communities", "Biodiversity", "15. Life on land", "Southeast Asia", "Microbiology", "QR1-502", "soil pH", "03 medical and health sciences", "13. Climate action", "tropical rainforest", "biodiversity"]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2016.00376"}, {"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.2016.00376", "name": "item", "description": "10.3389/fmicb.2016.00376", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2016.00376"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2016-04-05T00:00:00Z"}}, {"id": "10.3389/fmicb.2016.01207", "type": "Feature", "geometry": null, "properties": {"updated": "2026-08-24T16:19:03Z", "type": "Journal Article", "created": "2016-08-03", "title": "Wheat And Rice Growth Stages And Fertilization Regimes Alter Soil Bacterial Community Structure, But Not Diversity", "description": "Maintaining soil fertility and the microbial communities that determine fertility is critical to sustainable agricultural strategies, and the use of different organic fertilizer (OF) regimes represents an important practice in attempts to preserve soil quality. However, little is known about the dynamic response of bacterial communities to fertilization regimes across crop growth stages. In this study, we examined microbial community structure and diversity across eight representative growth stages of wheat-rice rotation under four different fertilization treatments: no nitrogen fertilizer (NNF), chemical fertilizer (CF), organic-inorganic mixed fertilizer (OIMF), and OF. Quantitative PCR (QPCR) and high-throughput sequencing of bacterial 16S rRNA gene fragments revealed that growth stage as the best predictor of bacterial community abundance and structure. Additionally, bacterial community compositions differed between wheat and rice rotations. Relative to soils under wheat rotation, soils under rice rotation contained higher relative abundances (RA) of anaerobic and mesophilic microbes and lower RA of aerophilic microbes. With respect to fertilization regime, NNF plots had a higher abundance of nitrogen-fixing Cyanobacteria. OIMF had a lower abundance of ammonia-oxidizing Thaumarchaeota compared with CF. Application of chemical fertilizers (CF and OIMF treatments) significantly increased the abundance of some generally oligotrophic bacteria such those belonging to the Acidobacteria, while more copiotrophic of the phylum Proteobacteria increased with OF application. A high correlation coefficient was found when comparing RA of Acidobacteria based upon QPCR vs. sequence analysis, yet poor correlations were found for the \u03b1- and \u03b2- Proteobacteria, highlighting the caution required when interpreting these molecular data. In total, crop, fertilization scheme and plant developmental stage all influenced soil microbial community structure, but not total levels of alpha diversity.", "keywords": ["2. Zero hunger", "Growth stage", "Fertilization regime", "04 agricultural and veterinary sciences", "15. Life on land", "bacterial community", "Microbiology", "Bacterial communities", "QR1-502", "growth stage", "fertilization regime", "wheat-rice rotation system", "0401 agriculture", " forestry", " and fisheries", "dynamic variation", "Wheat-rice rotation system", "Dynamic variation"]}, "links": [{"href": "https://doi.org/10.3389/fmicb.2016.01207"}, {"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.2016.01207", "name": "item", "description": "10.3389/fmicb.2016.01207", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fmicb.2016.01207"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2016-08-03T00:00:00Z"}}], "links": [{"rel": "self", "type": "application/geo+json", "title": "This document as GeoJSON", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=502&offset=50&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=502&offset=50&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": "prev", "title": "items (prev)", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=502&offset=0", "hreflang": "en-US"}, {"rel": "next", "type": "application/geo+json", "title": "items (next)", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=502&offset=100", "hreflang": "en-US"}], "numberMatched": 262, "numberReturned": 50, "distributedFeatures": [], "timeStamp": "2026-08-25T07:37:35.646981Z"}