{"type": "FeatureCollection", "features": [{"id": "10.1016/j.biocontrol.2025.105723", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:15:53Z", "type": "Journal Article", "created": "2024-10-01", "title": "Advancing Strain-Specific Taqman Assays for Trichoderma Asperellum Detection in Commercial Agricultural Settings", "description": "The global agricultural sector is facing significant challenges in achieving higher sustainability, which has increased interest in using biological control agents (BCAs) to manage plant diseases. However, it is essential to ensure that microbial-based products, such as BCAs, are utilised in a manner that does not harm soil quality and fertility while decreasing reliance on synthetic pesticides. To accomplish this, it is crucial to monitor the fate and persistence of bioinoculants in the soil, which is essential for optimising their application over time, as well as for regulatory and commercial purposes and environmental risk assessment. A qPCR detection method utilising TaqMan chemistry is proposed, which has demonstrated high specificity and sensitivity in detecting Trichoderma asperellum, a common BCA species, in soil. The primers and probe were designed based on the \u03b2tubulin2 gene. The TaqMan-based assay was applied and validated on soils where tomatoes and strawberries were grown after a previous application of T. asperellum FC80 strain over three years. The TaqMan-based assay was able to detect the target strain accurately, meeting the stringent requirements for commercial and regulatory applications. Significance and impact of the study: The TaqMan assay developed here has the potential to impact the agricultural sector significantly. It can be used for regulatory, commercial, and scientific purposes to track, monitor, and determine the presence and fate of T. asperellum under field crop conditions, thereby contributing to adopting more sustainable and efficient agricultural practices.", "keywords": ["traceability qPCR", "Soil", "TaqMan Assay", "S", "QH301-705.5", "Fungi Trichoderma asperellum", "Agriculture", "Biology (General)", "Biological control agent"]}, "links": [{"href": "https://doi.org/10.1016/j.biocontrol.2025.105723"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Biological%20Control", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.biocontrol.2025.105723", "name": "item", "description": "10.1016/j.biocontrol.2025.105723", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.biocontrol.2025.105723"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-01-01T00:00:00Z"}}, {"id": "10.3390/microorganisms8071093", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:21:03Z", "type": "Journal Article", "created": "2020-07-22", "title": "New insight into antimicrobial compounds from food and marine-sourced Carnobacterium species through phenotype and genome analyses.", "description": "<p>Carnobacterium maltaromaticum and Carnobacterium divergens, isolated from food products, are lactic acid bacteria known to produce active and efficient bacteriocins. Other species, particularly those originating from marine sources, are less studied. The aim of the study is to select promising strains with antimicrobial potential by combining genomic and phenotypic approaches on large datasets comprising 12 Carnobacterium species. The biosynthetic gene cluster (BGCs) diversity of 39 publicly available Carnobacterium spp. genomes revealed 67 BGCs, distributed according to the species and ecological niches. From zero to six BGCs were predicted per strain and classified into four classes: terpene, NRPS (non-ribosomal peptide synthetase), NRPS-PKS (hybrid non-ribosomal peptide synthetase-polyketide synthase), RiPP (ribosomally synthesized and post-translationally modified peptide). In parallel, the antimicrobial activity of 260 strains from seafood products was evaluated. Among the 60% of active strains, three genomes were sequenced and submitted to a dereplication process. C. inhibens MIP2551 produced a high amountof H2O2, probably thanks to the presence of four oxidase-encoding genes. C. maltaromaticum EBP3019 and SF668 strains were highly efficient against Listeria monocytogenes. A new extracellular 16 kDa unmodified bacteriocin in the EBP3019 strain and five different bacteriocins in SF668 were highlighted. In this study, the overview of antimicrobial BGC and inhibitory activities of Carnobacterium spp. allowed the prediction of potential innovative natural products that could be relevant for biotechnological applications.</p>", "keywords": ["Carnobacteriumspp", "0301 basic medicine", "2. Zero hunger", "570", "natural product", "antimicrobial activity", "QH301-705.5", "[SDV]Life Sciences [q-bio]", "NRPS", "hydrogen peroxide", "630", "<i>Carnobacterium </i>spp.", "<i>Carnobacterium</i> spp.", "Article", "lactic acid bacteria", "03 medical and health sciences", "bacteriocin", "genome mining", "RiPP", "Biology (General)", "terpene"]}, "links": [{"href": "http://www.mdpi.com/2076-2607/8/7/1093/pdf"}, {"href": "https://www.mdpi.com/2076-2607/8/7/1093/pdf"}, {"href": "https://doi.org/10.3390/microorganisms8071093"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microorganisms", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/microorganisms8071093", "name": "item", "description": "10.3390/microorganisms8071093", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/microorganisms8071093"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-07-21T00:00:00Z"}}, {"id": "10.3390/microorganisms8101506", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:21:03Z", "type": "Journal Article", "created": "2020-08-24", "title": "Microbiome Management by Biological and Chemical Treatments in Maize Is Linked to Plant Health", "description": "<p>The targeted application of plant growth promoting rhizobacteria (PGPR) provides the key for a future sustainable agriculture with reduced pesticide application. PGPR interaction with the indigenous microbiota is poorly understood but essential to develop reliable applications. Therefore, Stenotrophomonas rhizophila SPA-P69 was applied as seed coating and in combination with a fungicide based on the active ingredients fludioxonil, metalaxyl-M, captan and ziram. Plant performance and rhizosphere composition of treated and non-treated maize plants of two field trials were analyzed. Plant health was significantly increased by treatment; however overall corn yield was not changed. By applying high-throughput amplicon sequencing of the 16S rRNA and the ITS genes, the bacterial and fungal changes in the rhizosphere due to different treatments were determined. Despite treatments had a significant impact on the rhizosphere microbiota (9- 12%), the field site was identified as main driver (27- 37%). Soil microbiota composition from each site was significantly different, which explains the site-specific effects. In this study we were able to show first indications how PGPR treatments increase plant health via microbiome shifts in a site-specific manner. This way first steps towards a detailed understanding of PGPRs and developments of consistently efficient applications in diverse environments are set.</p>", "keywords": ["<i>Zea mays</i>", "2. Zero hunger", "0301 basic medicine", "0303 health sciences", "plant growth promoting rhizobacteria", "QH301-705.5", "15. Life on land", "maize", "Zea mays", "Article", "12. Responsible consumption", "corn", "03 medical and health sciences", "agricultural_sciences_agronomy", "fungicide", "16S rRNA gene", "ITS", "Biology (General)", "rhizosphere"]}, "links": [{"href": "http://www.mdpi.com/2076-2607/8/10/1506/pdf"}, {"href": "https://www.mdpi.com/2076-2607/8/10/1506/pdf"}, {"href": "https://doi.org/10.3390/microorganisms8101506"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microorganisms", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/microorganisms8101506", "name": "item", "description": "10.3390/microorganisms8101506", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/microorganisms8101506"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-08-21T00:00:00Z"}}, {"id": "10.5194/we-19-39-2019", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:21:55Z", "type": "Journal Article", "created": "2019-06-06", "title": "Unassisted establishment of biological soil crusts on dryland road slopes", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Abstract. Understanding patterns of habitat natural recovery after human-made disturbances is critical for the conservation of ecosystems under high environmental stress, such as drylands. In particular, the unassisted establishment of nonvascular plants such as biological soil crusts or biocrust communities (e.g., soil lichens, mosses and cyanobacteria) in newly formed habitats is not yet fully understood. However, the potential of biocrusts to improve soil structure and function at the early stages of succession and promote ecosystem recovery is enormous. In this study, we evaluated the capacity of lichen biocrusts to spontaneously establish and develop on road slopes in a Mediterranean shrubland. We also compared taxonomic and functional diversity of biocrusts between road slopes and natural habitats in the surroundings. Biocrust richness and cover, species composition, and functional structure were measured in 17 road slopes (nine roadcuts and eight embankments) along a 13\u2009km highway stretch. Topography, soil properties and vascular plant communities of road slopes were also characterized. We used Kruskal\u2013Wallis tests and applied redundancy analysis (RDA) to test the effect of environmental scenario (road slopes vs.\u00a0natural habitat) and other local factors on biocrust features. We found that biocrusts were common in road slopes after \u223c20\u00a0years of construction with no human assistance needed. However, species richness and cover were still lower than in natural remnants. Also, functional structure was quite similar between roadcuts (i.e., after soil excavation) and natural remnants, and topography and soil properties influenced species composition while environmental scenario type and vascular plant cover did not. These findings further support the idea of biocrusts as promising restoration tools in drylands and confirm the critical role of edaphic factors in biocrust establishment and development in land-use change scenarios.                     </p></article>", "keywords": ["0106 biological sciences", "QH301-705.5", "Physiology", "Science", "GC1-1581", "QH1-199.5", "Oceanography", "Microbiology", "01 natural sciences", "GF1-900", "QP1-981", "GE1-350", "Biology (General)", "QH540-549.5", "2. Zero hunger", "Ecology", "Q", "Botany", "General. Including nature conservation", " geographical distribution", "15. Life on land", "QR1-502", "Environmental sciences", "QL1-991", "Human ecology. Anthropogeography", "QK1-989", "QH1-278.5", "Natural history (General)", "Zoology"]}, "links": [{"href": "https://we.copernicus.org/articles/19/39/2019/we-19-39-2019.pdf"}, {"href": "https://doi.org/10.5194/we-19-39-2019"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Web%20Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.5194/we-19-39-2019", "name": "item", "description": "10.5194/we-19-39-2019", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5194/we-19-39-2019"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-06-06T00:00:00Z"}}, {"id": "10.1016/j.mec.2020.e00126", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-07-25T16:16:46Z", "type": "Journal Article", "created": "2020-03-19", "title": "Synthetic control of plasmid replication enables target- and self-curing of vectors and expedites genome engineering of Pseudomonas putida", "description": "Genome engineering of non-conventional microorganisms calls for the development of dedicated synthetic biology tools. Pseudomonas putida is a Gram-negative, non-pathogenic soil bacterium widely used for metabolic engineering owing to its versatile metabolism and high levels of tolerance to different types of stress. Genome editing of P. putida largely relies on homologous recombination events, assisted by helper plasmid-based expression of genes encoding DNA modifying enzymes. Plasmid curing from selected isolates is the most tedious and time-consuming step of this procedure, and implementing commonly used methods to this end in P. putida (e.g. temperature-sensitive replicons) is often impractical. To tackle this issue, we have developed a toolbox for both target- and self-curing of plasmid DNA in Pseudomonas species. Our method enables plasmid-curing in a simple cultivation step by combining in vivo digestion of vectors by the I-SceI homing nuclease with synthetic control of plasmid replication, triggered by the addition of a cheap chemical inducer (3-methylbenzoate) to the medium. The system displays an efficiency of vector curing >90% and the screening of plasmid-free clones is greatly facilitated by the use of fluorescent markers that can be selected according to the application intended. Furthermore, quick genome engineering of P. putida using self-curing plasmids is demonstrated through genome reduction of the platform strain EM42 by eliminating all genes encoding \u03b2-lactamases, the catabolic ben gene cluster, and the pyoverdine synthesis machinery. Physiological characterization of the resulting streamlined strain, P. putida SEM10, revealed advantageous features that could be exploited for metabolic engineering.", "keywords": ["Genome engineering", "0301 basic medicine", "0303 health sciences", "Pseudomonas putida", "QH301-705.5", "Plasmid curing", "3. Good health", "03 medical and health sciences", "Special issue on Non-conventional microbes edited by Ian Wheeldon and Aindrila Mukhopadhyay", "Biology (General)", "Metabolic engineering", "Synthetic biology", "TP248.13-248.65", "Biotechnology"]}, "links": [{"href": "https://doi.org/10.1016/j.mec.2020.e00126"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Metabolic%20Engineering%20Communications", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.mec.2020.e00126", "name": "item", "description": "10.1016/j.mec.2020.e00126", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.mec.2020.e00126"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-06-01T00:00:00Z"}}, {"id": "10.21203/rs.3.rs-561383/v1", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:06Z", "type": "Journal Article", "created": "2021-05-27", "title": "A spatiotemporal ensemble machine learning framework for generating land use / land cover time-series maps for Europe (2000 \u2013 2019) based on LUCAS, CORINE and GLAD Landsat", "description": "Abstract         <p>A seamless spatiotemporal machine learning framework for automated prediction, uncertainty assessment, and analysis of land use / land cover (LULC) dynamics is presented. The framework includes: (1) harmonization and preprocessing of high-resolution spatial and spatiotemporal covariate datasets (GLAD Landsat, NPP/VIIRS) including 5 million harmonized LUCAS and CORINE Land Cover-derived training samples, (2) model building based on spatial k-fold cross-validation and hyper-parameter optimization, (3) prediction of the most probable class, class probabilities and uncertainty per pixel, (4) LULC change analysis on time-series of produced maps. The spatiotemporal ensemble model was fitted by combining random forest, gradient boosted trees, and artificial neural network, with logistic regressor as meta-learner. The results show that the most important covariates for mapping LULC in Europe are: seasonal aggregates of Landsat green and near-infrared bands, multiple Landsat-derived spectral indices, and elevation. Spatial cross-validation of the model indicates consistent performance across multiple years with 62%, 70%, and 87% accuracy when predicting 33 (level-3), 14 (level-2), and 5 classes (level-1); with artificial surface classes such as 'airports' and 'railroads' showing the lowest match with validation points. The spatiotemporal model outperforms spatial models on known-year classification by 2.7% and unknown-year classification by 3.5%. Results of the accuracy assessment using 48,365 independent test samples shows 87% match with the validation points. Results of time-series analysis (time-series of LULC probabilities and NDVI images) suggest gradual deforestation trends in large parts of Sweden, the Alps, and Scotland. An advantage of using spatiotemporal ML is that the fitted model can be used to predict LULC in years that were not included in its training dataset, allowing generalization to past and future periods, e.g. to predict land cover for years prior to 2000 and beyond 2020. The generated land cover time-series data stack (ODSE-LULC), including the training points, is publicly available via the Open Data Science (ODS)-Europe Viewer.</p", "keywords": ["Time Factors", "Spatiotemporal", "QH301-705.5", "Data Mining and Machine Learning", "Urbanization", "Uncertainty", "Spatial analysis", "R", "Environmental monitoring", "04 agricultural and veterinary sciences", "15. Life on land", "01 natural sciences", "Europe", "Big data", "Machine learning", "Medicine", "0401 agriculture", " forestry", " and fisheries", "Biology (General)", "Landsat", "Ensemble", "Land use/land cover", "Environmental Monitoring", "Probability", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.21203/rs.3.rs-561383/v1"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PeerJ", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.21203/rs.3.rs-561383/v1", "name": "item", "description": "10.21203/rs.3.rs-561383/v1", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.21203/rs.3.rs-561383/v1"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-05-27T00:00:00Z"}}, {"id": "10.1038/s42003-022-04178-y", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:17:53Z", "type": "Journal Article", "created": "2022-11-17", "title": "Both abundant and rare fungi colonizing Fagus sylvatica ectomycorrhizal root-tips shape associated bacterial communities", "description": "Abstract<p>Ectomycorrhizal fungi live in close association with their host plants and form complex interactions with bacterial/archaeal communities in soil. We investigated whether abundant or rare ectomycorrhizal fungi on root-tips of young beech trees (Fagus sylvatica) shape bacterial/archaeal communities. We sequenced 16S rRNA genes and fungal internal transcribed spacer regions of individual root-tips and used ecological networks to detect the tendency of certain assemblies of fungal and bacterial/archaeal taxa to inhabit the same root-tip (i.e. modularity). Individual ectomycorrhizal root-tips hosted distinct fungal communities associated with unique bacterial/archaeal communities. The structure of the fungal-bacterial/archaeal association was determined by both, dominant and rare fungi. Integrating our data in a conceptual framework suggests that the effect of rare fungi on the bacterial/archaeal communities of ectomycorrhizal root-tips contributes to assemblages of bacteria/archaea on root-tips. This highlights the potential impact of complex fine-scale interactions between root-tip associated fungi and other soil microorganisms for the ectomycorrhizal symbiosis.</p", "keywords": ["0301 basic medicine", "QH301-705.5", "Fungal ecology; Microbial ecology; Symbiosis", "microbial ecology", "Plant Roots", "Article", "Microbial ecology", "Soil", "03 medical and health sciences", "Mycorrhizae", "RNA", " Ribosomal", " 16S", "Fagus", "Biology (General)", "106026 Ecosystem research", "Fungal ecology", "Symbiosis", "Soil Microbiology", "106022 Mikrobiologie", "0303 health sciences", "Bacteria", "15. Life on land", "Archaea", "symbiosis", "106026 \u00d6kosystemforschung", "fungal ecology", "106022 Microbiology"]}, "links": [{"href": "https://www.nature.com/articles/s42003-022-04178-y.pdf"}, {"href": "https://doi.org/10.1038/s42003-022-04178-y"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Communications%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1038/s42003-022-04178-y", "name": "item", "description": "10.1038/s42003-022-04178-y", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1038/s42003-022-04178-y"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-11-17T00:00:00Z"}}, {"id": "10.1101/2023.10.03.560709", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:18:33Z", "type": "Journal Article", "created": "2023-10-04", "title": "Bacteria face trade-offs in the decomposition of complex biopolymers", "description": "Abstract<p>Although depolymerization of complex carbohydrates is a growth-limiting bottleneck for microbial decomposers, we still lack understanding about how the production of different types of extracellular enzymes affect individual microbes and in turn the performance of whole decomposer communities. In this work we use a theoretical model to evaluate the potential trade-offs faced by microorganisms in biopolymer decomposition which arise due to the varied biochemistry of different depolymerizing enzyme classes. We specifically consider two broad classes of depolymerizing extracellular enzymes, which are widespread across microbial taxa: exo-enzymes that cleave small units from the ends of polymer chains and endo-enzymes that act at random positions generating degradation products of varied sizes. Our results demonstrate a fundamental trade-off in the production of these enzymes, which is independent of system\uffe2\uff80\uff99s complexity and which appears solely from the intrinsically different temporal depolymerization dynamics. As a consequence, specialists that produce either exo- or only endo-enzymes limit their growth to high or low substrate conditions, respectively. Conversely, generalists that produce both enzymes in an optimal ratio expand their niche and benefit from the synergy between the two enzymes. Finally, our results show that, in spatially-explicit environments, consortia composed of endo- and exo-specialists can only exist under oligotrophic conditions. In summary, our analysis demonstrates that the (evolutionary or ecological) selection of a depolymerization pathway will affect microbial fitness under low- or high substrate conditions, with impacts on the ecological dynamics of microbial communities. It provides a possible explanation why many polysaccharide degraders in nature show the genetic potential to produce both of these enzyme classes.</p>Author summary<p>The decomposition of polysaccharides by microbes is a key process in the global carbon cycle. It requires the joint action of a variety of microbially-produced extracellular enzymes. They can be broadly classified into endo-enzymes, that act in the middle of polymers, and exo-enzymes, that cleave units from polymer ends. Little is known about the benefits for microbes producing a certain enzyme type and the interplay between enzyme producing strategies in mixed communities. This hampers our comprehensive understanding of decomposition in terrestrial and marine ecosystems and thus limits the prediction of decomposition processes, for example in a changing climate.</p><p>Based on theoretical modelling, we revealed a fundamental trade-off in the action of these enzymes. While exo-enzymes are more efficient at high substrate conditions, endo-enzymes perform better when substrate is low. Generalists producing both enzymes expand their ecological niche of substrate availability compared to specialists only producing one of the two types. Complementary specialists only co-exist in oligotrophic conditions. We conclude that producing enzymes for specific steps within polymer degradation represents relevant ecological strategies for microbes in decomposer communities.</p", "keywords": ["2. Zero hunger", "106022 Mikrobiologie", "decomposition", "Bacteria", "Polymers", "QH301-705.5", "complex biopolymers", "Monomers", "Computational Biology", "Chitin", "Models", " Biological", "Enzymes", "Biopolymers", "Consortia", "106026 \u00d6kosystemforschung", "Oligomers", "106022 Microbiology", "14. Life underwater", "Biology (General)", "106026 Ecosystem research", "bacteria", "Depolymerization", "Research Article"]}, "links": [{"href": "https://doi.org/10.1101/2023.10.03.560709"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PLOS%20Computational%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1101/2023.10.03.560709", "name": "item", "description": "10.1101/2023.10.03.560709", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1101/2023.10.03.560709"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-10-03T00:00:00Z"}}, {"id": "10.1101/2024.01.17.575993", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:18:33Z", "type": "Journal Article", "created": "2024-01-19", "title": "Exposure of gut bacterial isolates to the anthelminthic drugs, ivermectin and moxidectin, leads to antibiotic-like phenotypes of growth inhibition and adaptation", "description": "Abstract<p>Due to their broad-spectrum activities, ivermectin and moxidectin are widely used anthelminthics in veterinary and human medicine. However, ivermectin has recently been shown to perturbate gut-microbial growth. Given the macrolide-like structure of both ivermectin and moxidectin, there is a need to characterize the antibiotic spectrum of these anthelminthic drugs and their potential implications in the development of cross-resistance to macrolides and other families of antibiotics. Here, we incubated 59 bacterial isolates representing different clades frequently found in the gut with ivermectin and moxidectin at different concentrations for 16-72h. Further, we challenged 10 bacterial isolates with repeated and gradually increasing concentrations of these two anthelminthics and subsequently characterized their sensitivity to different antibiotics as well as ascending anthelminthic concentrations. We found, that antibacterial activity of the two anthelminthics is comparable to a selection of tested antibiotics, as observed by potency and dose dependence. Bacterial anthelminthic challengingin vitroresulted in decreased anthelminthic sensitivity. Further, adaptation to anthelminthics is associated with decreased antibiotic sensitivity towards three macrolides, a lincosamide, a fluoroquinolone, a tetracycline and two carbapenems. The observed change in bacterial sensitivity profiles is associated with - and likely caused by - repeated anthelminthic exposure. Hence, current and future large-scale administration of ivermectin and moxidectin, respectively, for the control of helminths and malaria raises serious concerns - and hence potential off-target effects should be carefully monitored.</p", "keywords": ["Anthelmintics", "Ivermectin", "Phenotype", "Bacteria", "QH301-705.5", "Ivermectin/pharmacology; Macrolides/pharmacology; Anthelmintics/pharmacology; Anti-Bacterial Agents/pharmacology; Bacteria/drug effects; Bacteria/growth & development; Gastrointestinal Microbiome/drug effects; Phenotype; Microbial Sensitivity Tests; Animals", "Animals", "Macrolides", "Microbial Sensitivity Tests", "Biology (General)", "Article", "Anti-Bacterial Agents", "Gastrointestinal Microbiome"]}, "links": [{"href": "https://doi.org/10.1101/2024.01.17.575993"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Communications%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1101/2024.01.17.575993", "name": "item", "description": "10.1101/2024.01.17.575993", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1101/2024.01.17.575993"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-01-18T00:00:00Z"}}, {"id": "11353/10.2115948", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:25:00Z", "type": "Journal Article", "created": "2023-10-04", "title": "Bacteria face trade-offs in the decomposition of complex biopolymers", "description": "Abstract<p>Although depolymerization of complex carbohydrates is a growth-limiting bottleneck for microbial decomposers, we still lack understanding about how the production of different types of extracellular enzymes affect individual microbes and in turn the performance of whole decomposer communities. In this work we use a theoretical model to evaluate the potential trade-offs faced by microorganisms in biopolymer decomposition which arise due to the varied biochemistry of different depolymerizing enzyme classes. We specifically consider two broad classes of depolymerizing extracellular enzymes, which are widespread across microbial taxa: exo-enzymes that cleave small units from the ends of polymer chains and endo-enzymes that act at random positions generating degradation products of varied sizes. Our results demonstrate a fundamental trade-off in the production of these enzymes, which is independent of system\uffe2\uff80\uff99s complexity and which appears solely from the intrinsically different temporal depolymerization dynamics. As a consequence, specialists that produce either exo- or only endo-enzymes limit their growth to high or low substrate conditions, respectively. Conversely, generalists that produce both enzymes in an optimal ratio expand their niche and benefit from the synergy between the two enzymes. Finally, our results show that, in spatially-explicit environments, consortia composed of endo- and exo-specialists can only exist under oligotrophic conditions. In summary, our analysis demonstrates that the (evolutionary or ecological) selection of a depolymerization pathway will affect microbial fitness under low- or high substrate conditions, with impacts on the ecological dynamics of microbial communities. It provides a possible explanation why many polysaccharide degraders in nature show the genetic potential to produce both of these enzyme classes.</p>Author summary<p>The decomposition of polysaccharides by microbes is a key process in the global carbon cycle. It requires the joint action of a variety of microbially-produced extracellular enzymes. They can be broadly classified into endo-enzymes, that act in the middle of polymers, and exo-enzymes, that cleave units from polymer ends. Little is known about the benefits for microbes producing a certain enzyme type and the interplay between enzyme producing strategies in mixed communities. This hampers our comprehensive understanding of decomposition in terrestrial and marine ecosystems and thus limits the prediction of decomposition processes, for example in a changing climate.</p><p>Based on theoretical modelling, we revealed a fundamental trade-off in the action of these enzymes. While exo-enzymes are more efficient at high substrate conditions, endo-enzymes perform better when substrate is low. Generalists producing both enzymes expand their ecological niche of substrate availability compared to specialists only producing one of the two types. Complementary specialists only co-exist in oligotrophic conditions. We conclude that producing enzymes for specific steps within polymer degradation represents relevant ecological strategies for microbes in decomposer communities.</p", "keywords": ["2. Zero hunger", "106022 Mikrobiologie", "decomposition", "Bacteria", "Polymers", "QH301-705.5", "complex biopolymers", "Monomers", "Computational Biology", "Chitin", "Models", " Biological", "Enzymes", "Biopolymers", "Consortia", "106026 \u00d6kosystemforschung", "Oligomers", "106022 Microbiology", "14. Life underwater", "Biology (General)", "106026 Ecosystem research", "bacteria", "Depolymerization", "Research Article"]}, "links": [{"href": "https://doi.org/11353/10.2115948"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PLOS%20Computational%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "11353/10.2115948", "name": "item", "description": "11353/10.2115948", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/11353/10.2115948"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-10-03T00:00:00Z"}}, {"id": "10.1371/journal.pbio.0030319", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:19:30Z", "type": "Journal Article", "created": "2005-08-02", "title": "Responses Of Grassland Production To Single And Multiple Global Environmental Changes", "description": "In this century, increasing concentrations of carbon dioxide (CO2) and other greenhouse gases in the Earth's atmosphere are expected to cause warmer surface temperatures and changes in precipitation patterns. At the same time, reactive nitrogen is entering natural systems at unprecedented rates. These global environmental changes have consequences for the functioning of natural ecosystems, and responses of these systems may feed back to affect climate and atmospheric composition. Here, we report plant growth responses of an ecosystem exposed to factorial combinations of four expected global environmental changes. We exposed California grassland to elevated CO2, temperature, precipitation, and nitrogen deposition for five years. Root and shoot production did not respond to elevated CO2 or modest warming. Supplemental precipitation led to increases in shoot production and offsetting decreases in root production. Supplemental nitrate deposition increased total production by an average of 26%, primarily by stimulating shoot growth. Interactions among the main treatments were rare. Together, these results suggest that production in this grassland will respond minimally to changes in CO2 and winter precipitation, and to small amounts of warming. Increased nitrate deposition would have stronger effects on the grassland. Aside from this nitrate response, expectations that a changing atmosphere and climate would promote carbon storage by increasing plant growth appear unlikely to be realized in this system.", "keywords": ["Greenhouse Effect", "0106 biological sciences", "2. Zero hunger", "Nitrates", "Meteorological Concepts", "QH301-705.5", "Climate", "Carbon Dioxide", "Environment", "15. Life on land", "Poaceae", "Plant Roots", "01 natural sciences", "13. Climate action", "Biology (General)", "Plant Shoots", "Research Article", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1371/journal.pbio.0030319"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PLoS%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1371/journal.pbio.0030319", "name": "item", "description": "10.1371/journal.pbio.0030319", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1371/journal.pbio.0030319"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2005-08-09T00:00:00Z"}}, {"id": "10.1371/journal.pbio.3001130", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-07-25T16:19:30Z", "type": "Journal Article", "created": "2021-03-30", "title": "Microplastic effects on carbon cycling processes in soils", "description": "<p>Microplastics (MPs), plastic particles &lt;5 mm, are found in environments, including terrestrial ecosystems, planetwide. Most research so far has focused on ecotoxicology, examining effects on performance of soil biota in controlled settings. As research pivots to a more ecosystem and global change perspective, questions about soil-borne biogeochemical cycles become important. MPs can affect the carbon cycle in numerous ways, for example, by being carbon themselves and by influencing soil microbial processes, plant growth, or litter decomposition. Great uncertainty surrounds nano-sized plastic particles, an expected by-product of further fragmentation of MPs. A major concerted effort is required to understand the pervasive effects of MPs on the functioning of soils and terrestrial ecosystems; importantly, such research needs to capture the immense diversity of these particles in terms of chemistry, aging, size, and shape.</p>", "keywords": ["570", "microplastics", "QH301-705.5", "Essay", "Microplastics", "500 Naturwissenschaften und Mathematik::570 Biowissenschaften; Biologie::570 Biowissenschaften; Biologie", "15. Life on land", "01 natural sciences", "Carbon", "Carbon Cycle", "12. Responsible consumption", "Soil", "13. Climate action", "carbon cycle", "Biology (General)", "soils", "Ecosystem", "Soil Microbiology", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1371/journal.pbio.3001130"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PLOS%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1371/journal.pbio.3001130", "name": "item", "description": "10.1371/journal.pbio.3001130", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1371/journal.pbio.3001130"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-03-30T00:00:00Z"}}, {"id": "10.1371/journal.pbio.3002127", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:19:30Z", "type": "Journal Article", "created": "2023-05-18", "title": "A glycan receptor kinase facilitates intracellular accommodation of arbuscular mycorrhiza and symbiotic rhizobia in the legume Lotus japonicus", "description": "<p>Receptors that distinguish the multitude of microbes surrounding plants in the environment enable dynamic responses to the biotic and abiotic conditions encountered. In this study, we identify and characterise a glycan receptor kinase, EPR3a, closely related to the exopolysaccharide receptor EPR3. Epr3a is up-regulated in roots colonised by arbuscular mycorrhizal (AM) fungi and is able to bind glucans with a branching pattern characteristic of surface-exposed fungal glucans. Expression studies with cellular resolution show localised activation of the Epr3a promoter in cortical root cells containing arbuscules. Fungal infection and intracellular arbuscule formation are reduced in epr3a mutants. In vitro, the EPR3a ectodomain binds cell wall glucans in affinity gel electrophoresis assays. In microscale thermophoresis (MST) assays, rhizobial exopolysaccharide binding is detected with affinities comparable to those observed for EPR3, and both EPR3a and EPR3 bind a well-defined \uffce\uffb2-1,3/\uffce\uffb2-1,6 decasaccharide derived from exopolysaccharides of endophytic and pathogenic fungi. Both EPR3a and EPR3 function in the intracellular accommodation of microbes. However, contrasting expression patterns and divergent ligand affinities result in distinct functions in AM colonisation and rhizobial infection in Lotus japonicus. The presence of Epr3a and Epr3 genes in both eudicot and monocot plant genomes suggest a conserved function of these receptor kinases in glycan perception.</p", "keywords": ["570", "QH301-705.5", "ANZSRC::30 Agricultural", "MESORHIZOBIUM-LOTI", "Plant Roots", "veterinary and food sciences", "ROOT", "Polysaccharides", "Gene Expression Regulation", " Plant", "Mycorrhizae", "CELL", "Biology (General)", "Symbiosis", "Glucans", "Plant Proteins", "FUNGAL", "PERCEPTION", "ANZSRC::31 Biological sciences", "LAMINARIN", "Phosphotransferases", "500", "TRANSFORMATION", "EVOLUTION", "ANZSRC::32 Biomedical and clinical sciences", "DEFENSE RESPONSES", "Mutation", "Lotus", "EXOPOLYSACCHARIDE", "Root Nodules", " Plant", "Research Article", "Rhizobium"]}, "links": [{"href": "https://doi.org/10.1371/journal.pbio.3002127"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PLOS%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1371/journal.pbio.3002127", "name": "item", "description": "10.1371/journal.pbio.3002127", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1371/journal.pbio.3002127"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-05-18T00:00:00Z"}}, {"id": "10.1371/journal.pcbi.1010916", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-07-25T16:19:30Z", "type": "Journal Article", "created": "2023-03-07", "title": "Particle-based model shows complex rearrangement of tissue mechanical properties are needed for roots to grow in hard soil", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>When exposed to increased mechanical resistance from the soil, plant roots display non-linear growth responses that cannot be solely explained by mechanical principles. Here, we aim to investigate how changes in tissue mechanical properties are biologically regulated in response to soil strength. A particle-based model was developed to solve root-soil mechanical interactions at the cellular scale, and a detailed numerical study explored factors that affect root responses to soil resistance. Results showed how softening of root tissues at the tip may contribute to root responses to soil impedance, a mechanism likely linked to soil cavity expansion. The model also predicted the shortening and decreased anisotropy of the zone where growth occurs, which may improve the mechanical stability of the root against axial forces. The study demonstrates the potential of advanced modeling tools to help identify traits that confer plant resistance to abiotic stress.</p></article>", "keywords": ["2. Zero hunger", "Soil", "QH301-705.5", "Anisotropy", "15. Life on land", "Biology (General)", "Plant Roots", "Research Article", "Gravitation"]}, "links": [{"href": "https://doi.org/10.1371/journal.pcbi.1010916"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PLOS%20Computational%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1371/journal.pcbi.1010916", "name": "item", "description": "10.1371/journal.pcbi.1010916", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1371/journal.pcbi.1010916"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-03-07T00:00:00Z"}}, {"id": "10.3390/microorganisms9020426", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:21:03Z", "type": "Journal Article", "created": "2021-02-19", "title": "Identification of Beneficial Microbial Consortia and Bioactive Compounds with Potential as Plant Biostimulants for a Sustainable Agriculture", "description": "<p>A growing body of evidence demonstrates the potential of various microbes to enhance plant productivity in cropping systems although their successful field application may be impaired by several biotic and abiotic constraints. In the present work, we aimed at developing multifunctional synthetic microbial consortia to be used in combination with suitable bioactive compounds for improving crop yield and quality. Plant growth-promoting microorganisms (PGPMs) with different functional attributes were identified by a bottom-up approach. A comprehensive literature survey on PGPMs associated with maize, wheat, potato and tomato, and on commercial formulations, was conducted by examining peer-reviewed scientific publications and results from relevant European projects. Metagenome fragment recruitments on genomes of potential PGPMs represented in databases were also performed to help identify plant growth-promoting (PGP) strains. Following evidence of their ability to coexist, isolated PGPMs were synthetically assembled into three different microbial consortia. Additionally, the effects of bioactive compounds on the growth of individually PGPMs were tested in starvation conditions. The different combination products based on microbial and non-microbial biostimulants (BS) appear worth considering for greenhouse and open field trials to select those potentially adoptable in sustainable agriculture.</p>", "keywords": ["0301 basic medicine", "QH301-705.5", "delivery method", "Plant growth-promoting microorganisms", "SIMBA; sustainable agriculture; plant growth-promoting microorganisms; microbial consortia; metagenome fragment recruitments; delivery methods; in vitro compatibility; bioactive compounds", "630", "Bioactive compounds", "Article", "660.6", "12. Responsible consumption", "03 medical and health sciences", "plant growth-promoting microorganisms", "Delivery methods", "microbial consortia", "plant growth-promoting microorganism", "Biology (General)", "Metagenome fragment recruitments", "bioactive compound", "2. Zero hunger", "0303 health sciences", "bioactive compounds", "660", "in vitro compatibility", "Sustainable agriculture", "metagenome fragment recruitment", "ta4111", "SIMBA", "3. Good health", "sustainable agriculture", "Microbial consortia", "metagenome fragment recruitments", "delivery methods", "In vitro compatibility"]}, "links": [{"href": "http://www.mdpi.com/2076-2607/9/2/426/pdf"}, {"href": "https://www.mdpi.com/2076-2607/9/2/426/pdf"}, {"href": "https://doi.org/10.3390/microorganisms9020426"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microorganisms", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/microorganisms9020426", "name": "item", "description": "10.3390/microorganisms9020426", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/microorganisms9020426"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-02-19T00:00:00Z"}}, {"id": "10.1186/s13007-019-0523-8", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:19:22Z", "type": "Journal Article", "created": "2019-12-18", "title": "Dynamic biospeckle analysis, a new tool for the fast screening of plant nematicide selectivity", "description": "Abstract                 Background                 <p>Plant feeding, free-living nematodes cause extensive damage to plant roots by direct feeding and, in the case of some trichodorid and longidorid species, through the transmission of viruses. Developing more environmentally friendly, target-specific nematicides is currently impeded by slow and laborious methods of toxicity testing. Here, we developed a bioactivity assay based on the dynamics of light \uffe2\uff80\uff98speckle\uffe2\uff80\uff99 generated by living cells and we demonstrate its application by assessing chemicals\uffe2\uff80\uff99 toxicity to different nematode trophic groups.</p>                                Results                 <p>Free-living nematode populations extracted from soil were exposed to methanol and phenyl isothiocyanate (PEITC). Biospeckle analysis revealed differing behavioural responses as a function of nematode feeding groups. Trichodorus nematodes were less sensitive than were bacterial feeding nematodes or non-trichodorid plant feeding nematodes. Following 24\uffc2\uffa0h of exposure to PEITC, bioactivity significantly decreased for plant and bacterial feeders but not for Trichodorus nematodes. Decreases in movement for plant and bacterial feeders in the presence of PEITC also led to measurable changes to the morphology of biospeckle patterns.</p>                                Conclusions                 <p>Biospeckle analysis can be used to accelerate the screening of nematode bioactivity, thereby providing a fast way of testing the specificity of potential nematicidal compounds. With nematodes\uffe2\uff80\uff99 distinctive movement and activity levels being visible in the biospeckle pattern, the technique has potential to screen the behavioural responses of diverse trophic nematode communities. The method discriminates both behavioural responses, morphological traits and activity levels and hence could be used to assess the specificity of nematicidal compounds.</p>", "keywords": ["0301 basic medicine", "570", "0303 health sciences", "Selective plane illumination microscopy (SPIM)", "Nematodes", "QH301-705.5", "Methodology", "Plant culture", "630", "SB1-1110", "Dynamic speckle", "03 medical and health sciences", "Isothiocyanate", "Biology (General)", "Selective plan illumination microscopy (SPIM)"]}, "links": [{"href": "http://link.springer.com/content/pdf/10.1186/s13007-019-0523-8.pdf"}, {"href": "https://doi.org/10.1186/s13007-019-0523-8"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Plant%20Methods", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1186/s13007-019-0523-8", "name": "item", "description": "10.1186/s13007-019-0523-8", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1186/s13007-019-0523-8"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-12-01T00:00:00Z"}}, {"id": "10.3390/microorganisms8101557", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-07-25T16:21:03Z", "type": "Journal Article", "created": "2020-10-12", "title": "Sphingopyxis sp. Strain OPL5, an Isoprene-Degrading Bacterium from the Sphingomonadaceae Family Isolated from Oil Palm Leaves", "description": "<p>The volatile secondary metabolite, isoprene, is released by trees to the atmosphere in enormous quantities, where it has important effects on air quality and climate. Oil palm trees, one of the highest isoprene emitters, are increasingly dominating agroforestry over large areas of Asia, with associated uncertainties over their effects on climate. Microbes capable of using isoprene as a source of carbon for growth have been identified in soils and in the tree phyllosphere, and most are members of the Actinobacteria. Here, we used DNA stable isotope probing to identify the isoprene-degrading bacteria associated with oil palm leaves and inhabiting the surrounding soil. Among the most abundant isoprene degraders of the leaf-associated community were members of the Sphingomonadales, although no representatives of this order were previously known to degrade isoprene. Informed by these data, we obtained representatives of the most abundant isoprene degraders in enrichments, including Sphingopyxis strain OPL5 (Sphingomonadales), able to grow on isoprene as the sole source of carbon and energy. Sequencing of the genome of strain OPL5, as well as a novel Gordonia strain, confirmed their pathways of isoprene degradation and broadened our knowledge of the genetic and taxonomic diversity of this important bacterial trait.</p>", "keywords": ["2. Zero hunger", "0301 basic medicine", "0303 health sciences", "isoprene monooxygenase", "QH301-705.5", "isoA", "DNA-SIP", "<i>isoA</i>", "targeted isolation", "15. Life on land", "630", "Article", "03 medical and health sciences", "<i>Sphingopyxis</i>", "13. Climate action", "Sphingopyxis", "isoprene degradation", "Biology (General)"]}, "links": [{"href": "http://www.mdpi.com/2076-2607/8/10/1557/pdf"}, {"href": "https://ueaeprints.uea.ac.uk/id/eprint/77257/1/Published_Version.pdf"}, {"href": "https://www.mdpi.com/2076-2607/8/10/1557/pdf"}, {"href": "https://repository.essex.ac.uk/29146/1/Sphingopyxis%20sp.%20Strain%20OPL5,%20an%20Isoprene-Degrading%20Bacterium%20from%20the%20Sphingomonadaceae%20Family%20Isolated%20from%20Oil%20Palm%20Leave.pdf"}, {"href": "https://doi.org/10.3390/microorganisms8101557"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microorganisms", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/microorganisms8101557", "name": "item", "description": "10.3390/microorganisms8101557", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/microorganisms8101557"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-10-10T00:00:00Z"}}, {"id": "10.3390/microorganisms8111655", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-07-25T16:21:03Z", "type": "Journal Article", "created": "2020-10-26", "title": "Aspegillus terreus: From Soil to Industry and Back", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Aspergillus terreus is an important saprophytic filamentous fungus that can be found in soils. Like many other soil microorganisms, A. terreus demonstrates multiple functions and offers various important metabolites, which can be used in different fields of human activity. The first application of A. terreus on an industrial level is the production of itaconic acid, which is now considered as one of the most important bioproducts in the Green Chemistry field. The general schemes for itaconic acid production have been studied, but in this mini-review some lines of future research are presented based on analysis of the published results. A. terreus is also intensively studied for its biocontrol activity and plant growth-promoting effect. However, this microorganism is also known to infect important crops such as, amongst others, rice, wheat, potato, sugar cane, maize, and soybean. It was suggested, however, that the balance between positive vs. negative effects is dependent on the soil-plant-inoculant dose system. A. terreus has frequently been described as an important human pathogen. Therefore, its safety manipulation in biotechnological processes for the production of itaconic acid and some drugs and its use in soil-plant systems should be carefully assessed. Some suggestions in this direction are discussed, particularly concerning the uses in crop production.</p></article>", "keywords": ["plant growth promotion", "0301 basic medicine", "2. Zero hunger", "0303 health sciences", "<i>Aspergillus terreus</i>", "Aspergillus terreus; plant growth promotion; biocontrol; itaconic acid production; pathogenicity", "QH301-705.5", "Biocontrol", "Review", "15. Life on land", "Itaconic acid production", "3. Good health", "03 medical and health sciences", "Aspergillus terreus", "pathogenicity", "Plant growth promotion", "Pathogenicity", "biocontrol", "Biology (General)", "itaconic acid production"]}, "links": [{"href": "https://www.mdpi.com/2076-2607/8/11/1655/pdf"}, {"href": "https://doi.org/10.3390/microorganisms8111655"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microorganisms", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/microorganisms8111655", "name": "item", "description": "10.3390/microorganisms8111655", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/microorganisms8111655"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-10-25T00:00:00Z"}}, {"id": "10.3390/microorganisms8122024", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:21:03Z", "type": "Journal Article", "created": "2020-12-17", "title": "The Role of Petrimonas mucosa ING2-E5AT in Mesophilic Biogas Reactor Systems as Deduced from Multiomics Analyses", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Members of the genera Proteiniphilum and Petrimonas were speculated to represent indicators reflecting process instability within anaerobic digestion (AD) microbiomes. Therefore, Petrimonas mucosa ING2-E5AT was isolated from a biogas reactor sample and sequenced on the PacBio RSII and Illumina MiSeq sequencers. Phylogenetic classification positioned the strain ING2-E5AT in close proximity to Fermentimonas and Proteiniphilum species (family Dysgonomonadaceae). ING2-E5AT encodes a number of genes for glycosyl-hydrolyses (GH) which are organized in Polysaccharide Utilization Loci (PUL) comprising tandem susCD-like genes for a TonB-dependent outer-membrane transporter and a cell surface glycan-binding protein. Different GHs encoded in PUL are involved in pectin degradation, reflecting a pronounced specialization of the ING2-E5AT PUL systems regarding the decomposition of this polysaccharide. Genes encoding enzymes participating in amino acids fermentation were also identified. Fragment recruitments with the ING2-E5AT genome as a template and publicly available metagenomes of AD microbiomes revealed that Petrimonas species are present in 146 out of 257 datasets supporting their importance in AD microbiomes. Metatranscriptome analyses of AD microbiomes uncovered active sugar and amino acid fermentation pathways for Petrimonas species. Likewise, screening of metaproteome datasets demonstrated expression of the Petrimonas PUL-specific component SusC providing further evidence that PUL play a central role for the lifestyle of Petrimonas species.</p></article>", "keywords": ["Bioconversion", "anaerobic digestion", "0301 basic medicine", "2. Zero hunger", "bioconversion", "Biomethanation", "QH301-705.5", "570 Biologie", "polysaccharide utilization loci", "metabolic pathway reconstruction", "16. Peace & justice", "7. Clean energy", "Article", "660.6", "biomethanation", "03 medical and health sciences", "Metabolic pathway reconstruction", "Polysaccharide utilization loci", "carbohydrate-active enzymes; polysaccharide utilization loci; anaerobic digestion; biomethanation; metabolic pathway reconstruction; bioconversion", "Anaerobic digestion", "carbohydrate-active enzymes", "Carbohydrate-active enzymes", "ddc:570", "Biology (General)"]}, "links": [{"href": "http://www.mdpi.com/2076-2607/8/12/2024/pdf"}, {"href": "https://www.mdpi.com/2076-2607/8/12/2024/pdf"}, {"href": "https://doi.org/10.3390/microorganisms8122024"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microorganisms", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/microorganisms8122024", "name": "item", "description": "10.3390/microorganisms8122024", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/microorganisms8122024"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-12-17T00:00:00Z"}}, {"id": "10.14393/bj-v31n4a2015-26218", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:19:35Z", "type": "Journal Article", "created": "2015-07-01", "title": "Least Limiting Water Range And Degree Of Compactness Of Soils Under No- Tillage", "description": "<p>The least limiting water range (LLWR) and degree of compactness (DC) can be useful indicators of soil physical quality and crop yield. This study focused on assessing of LLWR, DC and evaluation of critical values to crop growth of an Alfisol and Oxisol under no-till management. Undisturbed soil cores were taken from the layer 0.00 - 0.20 m depth. Soil water retention curve, soil penetration resistance curve, air-filled porosity and bulk density (Bd) were measured. The range of LLWR variation was limited by volumetric water content at field capacity and penetration resistance. Values of LLWR varied from 0.00 - 0.14 m3 m-3 to Alfisol and 0.00 - 0.04 m3 m-3 to Oxisol. The critical values of the Bd and DC for crop development were 1.79 Mg m-3 and 1.35 Mg m-3 and 96% and 74% to Alfisol and Oxisol, respectively. Further researches relating LLWR, DC and crop response are still required in soils with different conditions and management.</p>", "keywords": ["2. Zero hunger", "bulk density", "porosity", "soil strength", "S", "QH301-705.5", "Soil strength", "Agriculture", "04 agricultural and veterinary sciences", "15. Life on land", "Soil quality", "Bulk density", "0401 agriculture", " forestry", " and fisheries", "soil quality", "Biology (General)", "Porosity"]}, "links": [{"href": "https://doi.org/10.14393/bj-v31n4a2015-26218"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Bioscience%20Journal", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.14393/bj-v31n4a2015-26218", "name": "item", "description": "10.14393/bj-v31n4a2015-26218", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.14393/bj-v31n4a2015-26218"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2015-06-30T00:00:00Z"}}, {"id": "10.3390/app14051917", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2024-02-26", "title": "Effects of Anaerobic Digestates and Biochar Amendments on Soil Health, Greenhouse Gas Emissions, and Microbial Communities: A Mesocosm Study", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>This study addresses the need for a comprehensive understanding of digestate and biochar in mitigating climate change and improving soil health, crucial for sustainable agriculture within the circular bioeconomy framework. Through a mesocosm experiment, soil was amended with digestates from pilot-scale reactors and two concentrations of biochar produced by pyrolysis of digested sewage sludge and waste wood. The Germination Index (GI) assay assessed phytotoxicity on Lactuca sativa and Triticum aestivum seeds. Greenhouse gas emissions (CO2, CH4, N2O) measurements, soil characteristics analyses, and the study of microbial community structure enriched the study\u2019s depth. The GI assay revealed diverse responses among by-products, dilution rates, and plant types, highlighting the potential phyto-stimulatory effects of digestate and biochar water-extracts. While digestate proved to be effective as fertilizer, concerns arose regarding microbial contamination. Biochar application reduced Clostridiaceae presence in soil but unexpectedly increased N2O emissions at higher concentrations, emphasizing the need for further research on biochar\u2019s role in mitigating microbial impacts. CO2 emissions increased with digestate application but decreased with a 10% biochar concentration, aligning with control levels. CH4 uptake decreased with digestate and high biochar concentrations. The study underscores the importance of tailored approaches considering biochar composition and dosage to optimize soil greenhouse gas fluxes and microbial communities.</p></article>", "keywords": ["Technology", "m\u00e4d\u00e4te", "QH301-705.5", "QC1-999", "Clostridiaceae", "ravinteet", "01 natural sciences", "630", "333", "12. Responsible consumption", "greenhouse gas emission", "biochar", "Biology (General)", "microorganisms", "QD1-999", "0105 earth and related environmental sciences", "2. Zero hunger", "biohiili", "soil nutrient", "T", "Physics", "04 agricultural and veterinary sciences", "15. Life on land", "Clostridiae", "Engineering (General). Civil engineering (General)", "6. Clean water", "Chemistry", "kasvihuonekaasut", "13. Climate action", "digestate", "mikro-organismit", "0401 agriculture", " forestry", " and fisheries", "TA1-2040"]}, "links": [{"href": "https://www.mdpi.com/2076-3417/14/5/1917/pdf"}, {"href": "https://doi.org/10.3390/app14051917"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/app14051917", "name": "item", "description": "10.3390/app14051917", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/app14051917"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-02-26T00:00:00Z"}}, {"id": "10.3390/app142210693", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2024-11-19", "title": "Corn Plant In-Row Distance Analysis Based on Unmanned Aerial Vehicle Imagery and Row-Unit Dynamics", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Uniform spatial distribution of plants is crucial in arable crops. Seeding quality is affected by numerous parameters, including the working speed and vibrations of the seeder. Therefore, investigating effective and rapid methods to evaluate seeding quality and the parameters affecting the seeders\u2019 performance is of high importance. With the latest advancements in unmanned aerial vehicle (UAV) technology, the potential for acquiring accurate agricultural data has significantly increased, making UAVs an ideal tool for scouting applications in agricultural systems. This study investigates the effectiveness of utilizing different plant recognition algorithms applied to UAV-derived images for evaluating seeder performance based on detected plant spacings. Additionally, it examines the impact of seeding unit vibrations on seeding quality by analyzing accelerometer data installed on the seeder. For the image analysis, three plant recognition approaches were tested: an unsupervised segmentation method based on the Visible Atmospherically Resistant Index (VARI), template matching (TM), and a deep learning model called Mask R-CNN. The Mask R-CNN model demonstrated the highest recognition reliability at 96.7%, excelling in detecting seeding errors such as misses and doubles, as well as in evaluating the quality of feed index and precision when compared to ground-truth data. Although the VARI-based unsupervised method and TM outperformed Mask R-CNN in recognizing double spacings, overall, the Mask R-CNN was the most promising. Vibration analysis indicated that the seeder\u2019s working speed significantly affected seeding quality. These findings suggest areas for potential improvements in machine technology to improve sowing operations.</p></article>", "keywords": ["0106 biological sciences", "Technology", "QH301-705.5", "T", "Physics", "QC1-999", "UAV imagery", "deep learning", "04 agricultural and veterinary sciences", "Engineering (General). Civil engineering (General)", "01 natural sciences", "FFT", "Chemistry", "seeding quality", "0401 agriculture", " forestry", " and fisheries", "TA1-2040", "Biology (General)", "QD1-999", "vibration analysis"]}, "links": [{"href": "https://www.mdpi.com/2076-3417/14/22/10693/pdf"}, {"href": "https://doi.org/10.3390/app142210693"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/app142210693", "name": "item", "description": "10.3390/app142210693", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/app142210693"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-11-19T00:00:00Z"}}, {"id": "10.3390/biology12091193", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:57Z", "type": "Journal Article", "created": "2023-08-31", "title": "Seasonality Is the Main Determinant of Microbial Diversity Associated to Snow/Ice around Concordia Station on the Antarctic Polar Plateau", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>The French\u2013Italian Concordia Research Station, situated on the Antarctic Polar Plateau at an elevation of 3233 m above sea level, offers a unique opportunity to study the presence and variation of microbes introduced by abiotic or biotic vectors and, consequently, appraise the amplitude of human impact in such a pristine environment. This research built upon a previous work, which explored microbial diversity in the surface snow surrounding the Concordia Research Station. While that study successfully characterized the bacterial assemblage, detecting fungal diversity was hampered by the low DNA content. To address this knowledge gap, in the present study, we optimized the sampling by increasing ice/snow collected to leverage the final DNA yield. The V4 variable region of the 16S rDNA and Internal Transcribed Spacer (ITS1) rDNA was used to evaluate bacterial and fungal diversity. From the sequencing, we obtained 3,352,661 and 4,433,595 reads clustered in 930 and 3182 amplicon sequence variants (ASVs) for fungi and bacteria, respectively. Amplicon sequencing revealed a predominance of Basidiomycota (49%) and Ascomycota (42%) in the fungal component; Bacteroidota (65.8%) is the main representative among the bacterial phyla. Basidiomycetes are almost exclusively represented by yeast-like fungi. Our findings provide the first comprehensive overview of both fungal and bacterial diversity in the Antarctic Polar Plateau\u2019s surface snow/ice near Concordia Station and to identify seasonality as the main driver of microbial diversity; we also detected the most sensitive microorganisms to these factors, which could serve as indicators of human impact in this pristine environment and aid in planetary protection for future exploration missions.</p></article>", "keywords": ["amplicon sequencing", "QH301-705.5", "Settore BIO/01", "15. Life on land", "Article", "extraterrestrial analogue", "Antarctic Polar Plateau", "life detection", "13. Climate action", "info:eu-repo/classification/ddc/579", "fungi", "Biology (General)", "bacteria", "extremophiles"]}, "links": [{"href": "https://art.torvergata.it/bitstream/2108/338723/1/2023_Seasonality%20Is%20the%20Main%20Determinant%20of%20Microbial%20Diversity%20Associated%20to%20Snow%3aIce%20around%20Concordia%20Station%20on%20the%20Antarctic%20Polar%20Plateau.pdf"}, {"href": "https://doi.org/10.3390/biology12091193"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/biology12091193", "name": "item", "description": "10.3390/biology12091193", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/biology12091193"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-08-31T00:00:00Z"}}, {"id": "10.1590/1983-21252016v29n405rc", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:19:48Z", "type": "Journal Article", "created": "2016-11-05", "title": "Corn Development And Production In Function Of Sources Of Nitrogen Fertilizers And Doses", "description": "<p>ABSTRACT Nitrogen (N) is one of the nutrients that have the most significant effect on corn grain productivity increase. In order to evaluate the effect of sources of N topdressing and doses in the grown corn culture, in a conventional till system, it was installed an experiment in the city of Uruta\uffc3\uffad, Goi\uffc3\uffa1s, in the 2012/13 crop, in clayey textured Red Latosol. The experimental design was a randomized complete block design with four replications, with the treatments arranged in a factorial 3 x 5, consisting of three sources (coated urea, urea and ammonium sulfate) and five doses (0, 60, 120, 180 and 240 kg ha-1) of N, topdressing, applied in the surface and in a single dose, when the corn plants were in V4 stage. The hybrid used was the P3646H. We evaluated the following characters: stem diameter, plant height, height of ear insertion, leaf N, number of ears per plant, ear length, number of rows per ear, number of grains per row, 100 grains mass and grain productivity. All characters have a response to nitrogen fertilization and only the height of ear insertion showed no significant difference between sources. The source coated urea showed the best results, indicating that its use may be compensatory, especially in favorable conditions for the NH3 volatilization, as the application of high doses of N in the surface.</p>", "keywords": ["0106 biological sciences", "Coated urea", "Aduba\u00e7\u00e3o nitrogenada", "S", "QH301-705.5", "Ureia", "Agriculture", "Sulfato de am\u00f4nio", "04 agricultural and veterinary sciences", "Aduba\u00e7\u00e3o nitrogenada. Sulfato de am\u00f4nio. Ureia. Ureia revestida. Zea mays L..", "01 natural sciences", "Nitrogen fertilization", "Zea mays L.", "Urea", "0401 agriculture", " forestry", " and fisheries", "Nitrogen fertilization. Ammonium sulfate. Urea. Coated urea. Zea mays L..", "Ammonium sulfate", "Biology (General)", "Ureia revestida"]}, "links": [{"href": "https://periodicos.ufersa.edu.br/caatinga/article/view/4377/pdf"}, {"href": "https://doi.org/10.1590/1983-21252016v29n405rc"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Revista%20Caatinga", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1590/1983-21252016v29n405rc", "name": "item", "description": "10.1590/1983-21252016v29n405rc", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1590/1983-21252016v29n405rc"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2016-12-01T00:00:00Z"}}, {"id": "10.20944/preprints202008.0471.v1", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:04Z", "type": "Journal Article", "created": "2020-08-24", "title": "Microbiome Management by Biological and Chemical Treatments in Maize is Linked to Plant Health", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>The targeted application of plant growth promoting rhizobacteria (PGPR) provides the key for a future sustainable agriculture with reduced pesticide application. PGPR interaction with the indigenous microbiota is poorly understood but essential to develop reliable applications. Therefore, Stenotrophomonas rhizophila SPA-P69 was applied as seed coating and in combination with a fungicide based on the active ingredients fludioxonil, metalaxyl-M, captan and ziram. Plant performance and rhizosphere composition of treated and non-treated maize plants of two field trials were analyzed. Plant health was significantly increased by treatment; however overall corn yield was not changed. By applying high-throughput amplicon sequencing of the 16S rRNA and the ITS genes, the bacterial and fungal changes in the rhizosphere due to different treatments were determined. Despite treatments had a significant impact on the rhizosphere microbiota (9- 12%), the field site was identified as main driver (27- 37%). Soil microbiota composition from each site was significantly different, which explains the site-specific effects. In this study we were able to show first indications how PGPR treatments increase plant health via microbiome shifts in a site-specific manner. This way first steps towards a detailed understanding of PGPRs and developments of consistently efficient applications in diverse environments are set.</p></article>", "keywords": ["<i>Zea mays</i>", "0301 basic medicine", "2. Zero hunger", "0303 health sciences", "plant growth promoting rhizobacteria", "QH301-705.5", "15. Life on land", "maize", "Zea mays", "Article", "12. Responsible consumption", "corn", "03 medical and health sciences", "agricultural_sciences_agronomy", "fungicide", "16S rRNA gene", "ITS", "Biology (General)", "rhizosphere"]}, "links": [{"href": "http://www.mdpi.com/2076-2607/8/10/1506/pdf"}, {"href": "https://www.mdpi.com/2076-2607/8/10/1506/pdf"}, {"href": "https://doi.org/10.20944/preprints202008.0471.v1"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microorganisms", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.20944/preprints202008.0471.v1", "name": "item", "description": "10.20944/preprints202008.0471.v1", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.20944/preprints202008.0471.v1"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-08-21T00:00:00Z"}}, {"id": "10.3390/app12125808", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2022-06-09", "title": "Experimental Study of the Usage of Combined Biopolymer and Plants in Reinforcing the Clayey Soil Exposed to Acidic and Alkaline Contaminations", "description": "<p>In the last decade, biopolymers have been extensively studied, showing a great potential in soil reinforcement and the promotion of vegetation growth with limited environmental impact. In this paper, a soil reinforcing method with combined biopolymer (xanthan gum, XG) and plants (oat) was proposed to strengthen the clayey soil with different pore fluid pH values. A series of laboratory tests were conducted, mainly including the plant cultivation tests and the direct shear tests. It was found that oats grew better in the neutral, weakly acidic, and weakly alkaline soil environments. Both 0.25% XG and 0.50% XG that mostly promoted plant growth, also led to higher soil shear strength. An excessive XG content (e.g., 0.75% and 1.00%) may lead to the formation of a hard XG\uffe2\uff80\uff93soil matrix, preventing oat growth and therefore resulting in a lower shear strength. The XG\uffe2\uff80\uff93oat combination was found to be more effective in treating the soils with acidic pH values. Furthermore, the XG\uffe2\uff80\uff93oat combination is able to reduce the types and contents of heavy metal elements in the soil. Therefore, we suggest using biopolymers in combination with plants to improve the stability and geotechnical performances of the shallow soil slopes that are exposed to acidic and alkaline contamination.</p>", "keywords": ["2. Zero hunger", "Technology", "QH301-705.5", "T", "Physics", "QC1-999", "xanthan gum", "QK", "0211 other engineering and technologies", "clayey soil", "02 engineering and technology", "direct shear test", "15. Life on land", "Engineering (General). Civil engineering (General)", "acidic/alkaline contamination", "6. Clean water", "QR", "xanthan gum; oats; clayey soil; acidic/alkaline contamination; direct shear test", "Chemistry", "TA", "TA1-2040", "Biology (General)", "QD1-999", "oats"], "contacts": [{"organization": "Ni, Jing, Chen, Jiaqi, Liu, Shuojie, Hao, Ganglai, Geng, Xueyu,", "roles": ["creator"]}]}, "links": [{"href": "http://wrap.warwick.ac.uk/168998/1/WRAP-experimental-study-usage-combined-biopolymer-plants-reinforcing-clayey-soil-exposed-acidic-alkaline-contaminations-Geng-2022.pdf"}, {"href": "http://www.mdpi.com/2076-3417/12/12/5808/pdf"}, {"href": "https://www.mdpi.com/2076-3417/12/12/5808/pdf"}, {"href": "https://doi.org/10.3390/app12125808"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/app12125808", "name": "item", "description": "10.3390/app12125808", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/app12125808"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-06-07T00:00:00Z"}}, {"id": "10.3390/app12126068", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2022-06-16", "title": "Comparison of Methods for Reconstructing MODIS Land Surface Temperature under Cloudy Conditions", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Land surface temperature (LST) is a vital parameter associated with the land\u2013atmosphere interface. The Moderate Resolution Imaging Spectroradiometer (MODIS) LST product can provide precise LST with high time resolution, and is widely applied in various remote sensing temperature research. However, due to its inability to penetrate the cloud and fog, its quality is not able to meet the requirements of actual research. Hence, obtaining continuous and cloudless MODIS LST datasets remains challenging for researchers. The critical point is to reconstruct missing pixels. To compare the performance of different methods, first, three kinds of methods were used to reconstruct the missing pixels, namely, temporal, spatial, and spatiotemporal methods. The predicted values using these methods were validated by the automatic weather system data (AWS) in the Heihe river basin of China. The results demonstrated that, compared with other methods, linear temporal interpolation using Aqua data had the best performance in MODIS LST reconstruction in the Heihe river basin, with an RMSE of 7.13 K and an R2 of 0.82, and the NSE and PBias were 0.78 and \u22120.76%, respectively. Furthermore, the interpolation method was improved using adaptive windows and robust regression. First, the international Geosphere\u2013Biosphere Program (IGBP) classification was employed to distinguish the different land surface types. Then, the invalid LST values were reconstructed using adjacent days\u2019 effective LST values combined with a robust regression. Finally, a mean filter was applied to eliminate outliers. The overall results combined with ERA5 data were validated by AWS, with an RMSE of 6.96 K and an R2 of 0.79 and the NSE and PBias were 0.77 and \u22120.20%, respectively. The validation demonstrated that the scheme proposed in this paper is able to accurately reconstruct the missing values and improve the accuracy of the interpolation method to a certain extent when reconstructing MODIS LST.</p></article>", "keywords": ["Technology", "land surface temperature (LST)", "reconstruction", "land surface temperature (LST); remote sensing; interpolation; reconstruction; MODIS", "QH301-705.5", "T", "Physics", "QC1-999", "Engineering (General). Civil engineering (General)", "01 natural sciences", "interpolation", "6. Clean water", "Chemistry", "remote sensing", "MODIS", "13. Climate action", "TA1-2040", "Biology (General)", "QD1-999", "0105 earth and related environmental sciences"]}, "links": [{"href": "http://www.mdpi.com/2076-3417/12/12/6068/pdf"}, {"href": "https://doi.org/10.3390/app12126068"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/app12126068", "name": "item", "description": "10.3390/app12126068", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/app12126068"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-06-15T00:00:00Z"}}, {"id": "10.21203/rs.3.rs-5128244/v2", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:06Z", "type": "Journal Article", "created": "2025-07-14", "title": "Spatiotemporal prediction of soil organic carbon density in Europe (2000\u20132022) using earth observation and machine learning", "description": "<p>This article describes a comprehensive framework for soil organic carbon density (SOCD, kg/m3) modeling and mapping, based on spatiotemporal random forest (RF) and quantile regression forests (QRF). A total of 45,616 SOCD observations and various Earth observation (EO) feature layers were used to produce 30 m SOCD maps for the EU at four-year intervals (2000\uffe2\uff80\uff932022) and four soil depth intervals (0\uffe2\uff80\uff9320 cm, 20\uffe2\uff80\uff9350 cm, 50\uffe2\uff80\uff93100 cm, and 100\uffe2\uff80\uff93200 cm). Per-pixel 95% probability prediction intervals (PIs) and extrapolation risk probabilities are also provided. Model evaluation indicates good overall accuracy (R2 = 0.63 and CCC = 0.76 for hold-out independent tests). Prediction accuracy varies by land cover, depth interval and year of prediction with the worst accuracy for shrubland and deeper soils 100\uffe2\uff80\uff93200 cm. The PI validation confirmed effective uncertainty estimation, though with reduced accuracy for higher SOCD values. Shapley analysis identified soil depth as the most influential feature, followed by vegetation, long-term bioclimate, and topographic features. While pixel-level uncertainty is substantial, spatial aggregation reduces uncertainty by approximately 66%. Detecting SOCD changes remains challenging but offers a baseline for future improvements. Maps, based primarily on topsoil data from cropland, grassland, and woodland, are best suited for applications related to these land covers and depths. We recommend that users interpret the maps in conjunction with local knowledge and consider the accompanying uncertainty and extrapolation risk layers. All data and code are available under an open license at https://doi.org/10.5281/zenodo.13754343 and https://github.com/AI4SoilHealth/SoilHealthDataCube/.</p", "keywords": ["Model interpretability", "Earth observation", "Time series", "QH301-705.5", "Uncertainty", "R", "Soil organic carbon density", "Soil Science", "Data transformation", "Spatial aggregation", "Machine learning", "Medicine", "Shapley value", "Biology (General)", "Random forest"]}, "links": [{"href": "https://doi.org/10.21203/rs.3.rs-5128244/v2"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PeerJ", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.21203/rs.3.rs-5128244/v2", "name": "item", "description": "10.21203/rs.3.rs-5128244/v2", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.21203/rs.3.rs-5128244/v2"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2025-05-01T00:00:00Z"}}, {"id": "10.3390/app12126194", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2022-06-17", "title": "Natural Time Series Parameters Forecasting: Validation of the Pattern-Sequence-Based Forecasting (PSF) Algorithm; A New Python Package", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Climate change has contributed substantially to the weather and land characteristic phenomena. Accurate time series forecasting for climate and land parameters is highly essential in the modern era for climatologists. This paper provides a brief introduction to the algorithm and its implementation in Python. The pattern-sequence-based forecasting (PSF) algorithm aims to forecast future values of a univariate time series. The algorithm is divided into two major processes: the clustering of data and prediction. The clustering part includes the selection of an optimum value for the number of clusters and labeling the time series data. The prediction part consists of the selection of a window size and the prediction of future values with reference to past patterns. The package aims to ease the use and implementation of PSF for python users. It provides results similar to the PSF package available in R. Finally, the results of the proposed Python package are compared with results of the PSF and ARIMA methods in R. One of the issues with PSF is that the performance of forecasting result degrades if the time series has positive or negative trends. To overcome this problem difference pattern-sequence-based forecasting (DPSF) was proposed. The Python package also implements the DPSF method. In this method, the time series data are first differenced. Then, the PSF algorithm is applied to this differenced time series. Finally, the original and predicted values are restored by applying the reverse method of the differencing process. The proposed methodology is tested on several complex climate and land processes and its potential is evidenced.</p></article>", "keywords": ["Technology", "330", "QH301-705.5", "univariate", "T", "Physics", "QC1-999", "forecasting", "02 engineering and technology", "Engineering (General). Civil engineering (General)", "forecasting; univariate; time series; Python; PSF", "Chemistry", "0203 mechanical engineering", "13. Climate action", "0202 electrical engineering", " electronic engineering", " information engineering", "time series", "TA1-2040", "Biology (General)", "QD1-999", "PSF", "Python"]}, "links": [{"href": "http://www.mdpi.com/2076-3417/12/12/6194/pdf"}, {"href": "https://www.mdpi.com/2076-3417/12/12/6194/pdf"}, {"href": "https://research.usq.edu.au/download/a41f7e6afaf72d3aab08e4fbf5850ce9baed364db9cd274b284e7956b4aa1a6e/1339682/applsci-12-06194-v3.pdf"}, {"href": "https://doi.org/10.3390/app12126194"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/app12126194", "name": "item", "description": "10.3390/app12126194", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/app12126194"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-06-17T00:00:00Z"}}, {"id": "10.3390/microorganisms10091716", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:21:03Z", "type": "Journal Article", "created": "2022-08-29", "title": "Fungi, P-Solubilization, and Plant Nutrition", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>The application of plant beneficial microorganisms is widely accepted as an efficient alternative to chemical fertilizers and pesticides. It was shown that annually, mycorrhizal fungi and nitrogen-fixing bacteria are responsible for 5 to 80% of all nitrogen, and up to 75% of P plant acquisition. However, while bacteria are the most studied soil microorganisms and most frequently reported in the scientific literature, the role of fungi is relatively understudied, although they are the primary organic matter decomposers and govern soil carbon and other elements, including P-cycling. Many fungi can solubilize insoluble phosphates or facilitate P-acquisition by plants and, therefore, form an important part of the commercial microbial products, with Aspergillus, Penicillium and Trichoderma being the most efficient. In this paper, the role of fungi in P-solubilization and plant nutrition will be presented with a special emphasis on their production and application. Although this topic has been repeatedly reviewed, some recent views questioned the efficacy of the microbial P-solubilizers in soil. Here, we will try to summarize the proven facts but also discuss further lines of research that may clarify our doubts in this field or open new perspectives on using the microbial and particularly fungal P-solubilizing potential in accordance with the principles of the sustainability and circular economy.</p></article>", "keywords": ["2. Zero hunger", "P-solubilization; alternative P-sources; fungi; new strategies for P-solubilization; sustainable agriculture", "QH301-705.5", "New strategies for P-solubilization", "Sustainable agriculture", "Fungi", "Alternative P-sources", "alternative P-sources", "Review", "04 agricultural and veterinary sciences", "15. Life on land", "6. Clean water", "new strategies for P-solubilization", "12. Responsible consumption", "sustainable agriculture", "P-solubilization", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "fungi", "Biology (General)"]}, "links": [{"href": "https://iris.polito.it/bitstream/11583/2972394/1/microorganisms-10-01716.pdf"}, {"href": "https://www.mdpi.com/2076-2607/10/9/1716/pdf"}, {"href": "https://doi.org/10.3390/microorganisms10091716"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microorganisms", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/microorganisms10091716", "name": "item", "description": "10.3390/microorganisms10091716", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/microorganisms10091716"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-08-26T00:00:00Z"}}, {"id": "10.3390/microorganisms10122479", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:21:03Z", "type": "Journal Article", "created": "2022-12-15", "title": "Flavonoids Are Intra- and Inter-Kingdom Modulator Signals", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Flavonoids are a broad class of secondary metabolites with multifaceted functionalities for plant homeostasis and are involved in facing both biotic and abiotic stresses to sustain plant growth and health. Furthermore, they were discovered as mediators of plant networking with the surrounding environment, showing a surprising ability to perform as signaling compounds for a multitrophic inter-kingdom level of communication that influences the plant host at the phytobiome scale. Flavonoids orchestrate plant-neighboring plant allelopathic interactions, recruit beneficial bacteria and mycorrhizal fungi, counteract pathogen outbreak, influence soil microbiome and affect plant physiology to improve its resilience to fluctuating environmental conditions. This review focuses on the diversified spectrum of flavonoid functions in plants under a variety of stresses in the modulation of plant morphogenesis in response to environmental clues, as well as their role as inter-kingdom signaling molecules with micro- and macroorganisms. Regarding the latter, the review addresses flavonoids as key phytochemicals in the human diet, considering their abundance in fruits and edible plants. Recent evidence highlights their role as nutraceuticals, probiotics and as promising new drugs for the treatment of several pathologies.</p></article>", "keywords": ["0301 basic medicine", "phytochemicals; root exudates; phytobiome; plant-microbe interactions; beneficial microbes; plant secondary metabolites; abiotic stress; biotic stress; rhizosphere; microbiome", "0303 health sciences", "03 medical and health sciences", "beneficial microbes", "QH301-705.5", "phytobiome", "plant-microbe interactions", "Review", "Biology (General)", "phytochemicals", "root exudates", "plant secondary metabolites"]}, "links": [{"href": "https://air.unimi.it/bitstream/2434/949072/2/Ghitti%20et%20al%202022%20flavonoids%20are%20intra%20and%20inter%20kingdom%20modulator%20signals.pdf"}, {"href": "https://doi.org/10.3390/microorganisms10122479"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microorganisms", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/microorganisms10122479", "name": "item", "description": "10.3390/microorganisms10122479", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/microorganisms10122479"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-12-15T00:00:00Z"}}, {"id": "10.21769/bioprotoc.3799", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:31Z", "type": "Journal Article", "created": "2020-10-19", "title": "Low-cost and High-throughput RNA-seq Library Preparation for Illumina Sequencing from Plant Tissue", "description": "Transcriptome analysis can provide clues to biological processes affected in different genetic backgrounds or/and under various conditions. The price of RNA sequencing (RNA-seq) has decreased enough so that medium- to large-scale transcriptome analyses in a range of conditions are feasible. However, the price and variety of options for library preparation of RNA-seq can still be daunting to those who would like to use RNA-seq for their first time or for a single experiment. Among the criteria for selecting a library preparation protocol are the method of RNA isolation, nucleotide fragmentation to obtain desired size range, and library indexing to pool sequencing samples for multiplexing. Here, we present a high-quality and a high-throughput option for preparing libraries from polyadenylated mRNA for transcriptome analysis. Both high-quality and high-throughput protocol options include steps of mRNA enrichment through magnetic bead-enabled precipitation of the poly-A tail, cDNA synthesis, and then fragmentation and adapter addition simultaneously through Tn5-mediated 'tagmentation'. All steps of the protocols have been validated with Arabidopsis thaliana leaf and seedling tissues and streamlined to work together, with minimal cost in money and time, thus intended to provide a beginner-friendly start-to-finish RNA-seq library preparation for transcriptome analysis.", "keywords": ["0301 basic medicine", "570", "0303 health sciences", "Arabidopsis thaliana", "QH301-705.5", "Plant", "580 Plants (Botany)", "Multiplexing", "Tagmentation", "03 medical and health sciences", "10126 Department of Plant and Microbial Biology", "10211 Zurich-Basel Plant Science Center", "RNA-seq", "Biology (General)", "Transcriptomics"]}, "links": [{"href": "https://escholarship.org/content/qt44f1027m/qt44f1027m.pdf"}, {"href": "https://doi.org/10.21769/bioprotoc.3799"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/BIO-PROTOCOL", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.21769/bioprotoc.3799", "name": "item", "description": "10.21769/bioprotoc.3799", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.21769/bioprotoc.3799"}, {"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": "10.2298/abs0904741f", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:32Z", "type": "Journal Article", "created": "2009-12-23", "title": "Patterns And Relationships Of Plant Traits, Community Structural Attributes, And Eco-Hydrological Functions During A Subtropical Secondary Succession In Central Yunnan (Southwest China)", "description": "<p>Human-induced changes in land use lead to major changes in plant community composition and structure which have strong effects on eco-hydrological processes and functions. We here tested the hypothesis that changes in traits of living plants have resulted in changes in structural attributes of the community that influenced eco-hydrological functions by altering eco-hydrological processes. This was done in the context of a subtropical secondary forest suc?cession following land abandonment in Central Yunnan (Southwest China). During the succession, species with high specific leaf area (SLA), high leaf nitrogen concentration (LNC), high specific root length (SRL), and low leaf dry matter content (LDMC) were progressively replaced by species with the opposite characteristics. The obtained results of correlation analyses were as follows: (1) Correlations were significant between community-aggregated SLA, LNC, and the leaf area index (LAI). Significant correlations were detected between LAI, canopy interception and stemflow, and surface runoff and soil erosion. (2) Significant correlations were also found between community-aggregated SLA, LNC, LDMC, and accumulated litter biomass. High accumulated litter biomass strongly increases the maximum water-retaining capac?ity of litter. However, significant correlations were not found between the maximum water-retaining capacity of litter and surface runoff and soil erosion. (3) Correlations were significant between community-aggregated SLA, LNC, and fine root biomass. Fine root biomass was not significantly related to the maximum water-retaining capacity of the soil, but was significantly related to surface runoff and soil erosion. These results suggest that canopy characteristics play a more important role in control of runoff and soil erosion at the studied site. It follows that plant functional traits are closely linked with canopy characteristics, which should be used as a standard for selecting species in restoration and revegetation for water and soil conservation.</p>", "keywords": ["0301 basic medicine", "0303 health sciences", "03 medical and health sciences", "plant functional traits", "forest ecological hydrology", "QH301-705.5", "community structure", "Biology (General)", "15. Life on land", "water and soil conservation"]}, "links": [{"href": "https://doi.org/10.2298/abs0904741f"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Archives%20of%20Biological%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.2298/abs0904741f", "name": "item", "description": "10.2298/abs0904741f", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.2298/abs0904741f"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2009-01-01T00:00:00Z"}}, {"id": "10.2478/jofnem-2023-0006", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:37Z", "type": "Journal Article", "created": "2023-04-22", "title": "18S-NemaBase: Curated 18S rRNA Database of Nematode Sequences", "description": "Abstract                <p>Nematodes are the most abundant and diverse animals on the planet but lack representation in biodiversity research. This presents a problem for studying nematode diversity, particularly when molecular tools (i.e., barcoding and metabarcoding) rely on well-populated and curated reference databases, which are absent for nematodes. To improve molecular identification and the assessment of nematode diversity, we created and curated an 18S rRNA database specific to nematodes (18S-NemaBase) using sequences sourced from the most recent publicly available 18S rRNA SILVA v138 database. As part of the curation process, taxonomic strings were standardized to contain a fixed number of taxonomic ranks relevant to nematology and updated for the most recent accepted nematode classifications. In addition, apparent erroneous sequences were removed. To test the efficacy and accuracy of 18S-NemaBase, we compared it to an older but also curated SILVA v111 and the newest SILVA v138 by assigning taxonomies and analyzing the diversity of a nematode dataset from the Western Nebraska Sandhills. We showed that 18S-NemaBase provided more accurate taxonomic assignments and diversity assessments than either version of SILVA, with a much easier workflow and no need for manual corrections. Additionally, observed diversity further improved when 18S-NemaBase was supplemented with reference sequences from nematodes present in the study site. Although the 18S-NemaBase is a step in the right direction, a concerted effort to increase the number of high-quality, accessible, full-length nematode reference sequences is more important now than ever.</p", "keywords": ["570", "QH301-705.5", "Plant Sciences", "Plant Biology", "15. Life on land", "Plant Pathology", "630", "metabarcoding", "nematodes", "Other Plant Sciences", "ecology", "Biology (General)", "database", "biodiversity", "Research Paper"]}, "links": [{"href": "https://doi.org/10.2478/jofnem-2023-0006"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20Nematology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.2478/jofnem-2023-0006", "name": "item", "description": "10.2478/jofnem-2023-0006", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.2478/jofnem-2023-0006"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-02-01T00:00:00Z"}}, {"id": "10.2478/s11535-010-0017-1", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:37Z", "type": "Journal Article", "created": "2010-04-07", "title": "Soil Co2 Flux Affected By Aporrectodea Caliginosa Earthworms", "description": "Abstract<p>The effects of Aporrectodea caliginosa earthworms on both carbon dioxide (CO2) accumulation in and emissions from soil, as well as the simultaneous impact of earthworms on soil microbiological properties were investigated in a microcosm experiment carried out over 5.5 months. Concentration of CO2 in soil air was greater at a depth of 15 cm when compared with a depth of 5 cm, but varied during the season both in control and earthworm-inhabited chambers. Peaks of CO2 concentrations at both depths occurred in both treatments during August, approximately 80 days after the experiment started. Generally, the presence of earthworms increased the CO2 concentration at 15-cm depth. Larger CO2 emissions were consistently recorded in conjunction with higher amounts of CO2 in soil air when chambers were inhabited by earthworms. The total CO2 emissions during the experimental period covering 161 days were estimated at 118 g CO2-C m\uffe2\uff88\uff922 and 99 g CO2-C m\uffe2\uff88\uff922 from chambers with and without earthworms respectively. Moreover, the presence of earthworms increased microbial biomass in the centre and at the bottom of chambers, and enhanced both dehydrogenase activity and nitrifying enzyme activity in the soils. We suggest that the effect of earthworms on both the enhanced soil accumulation of CO2 as well as emissions of CO2 was mostly indirect, due to the impacts of earthworms on soil microbial community.</p>", "keywords": ["QH301-705.5", "13. Climate action", "emission", "aporrectodea caliginosa", "carbon dioxide", "soil air", "0401 agriculture", " forestry", " and fisheries", "earthworms", "04 agricultural and veterinary sciences", "Biology (General)", "oxygen"]}, "links": [{"href": "https://doi.org/10.2478/s11535-010-0017-1"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Open%20Life%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.2478/s11535-010-0017-1", "name": "item", "description": "10.2478/s11535-010-0017-1", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.2478/s11535-010-0017-1"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2010-06-01T00:00:00Z"}}, {"id": "10.3390/app12094623", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2022-05-05", "title": "Opportunities for Low Indirect Land Use Biomass for Biofuels in Europe", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Sustainable biofuels are an important tool for the decarbonisation of transport. This is especially true in aviation, maritime, and heavy-duty sectors with limited short-term alternatives. Their use by conventional transport fleets requires few changes to the existing infrastructure and engines, and thus their integration can be smooth and relatively rapid. Provision of feedstock should comply with sustainability principles for (i) producing additional biomass without distorting food and feed markets and (ii) addressing challenges for ecosystem services, including biodiversity, and soil quality. This paper performs a meta-analysis of current research for low indirect land use change (ILUC) risk biomass crops for sustainable biofuels that benefited either from improved agricultural practices or from cultivation in unused, abandoned, or severely degraded land. Two categories of biomass crops are considered here: oil and lignocellulosic. The findings confirm that there are significant opportunities to cultivate these crops in European agro-ecological zones with sustainable agronomic practices both in farming land and in land with natural constraints (unused, abandoned, and degraded land). These could produce additional low environmental impact feedstocks for biofuels and deliver economic benefits to farmers.</p></article>", "keywords": ["advanced biofuels", "Technology", "Chemistry", " Multidisciplinary", "01 natural sciences", "7. Clean energy", "630", "CROP-ROTATION", "CARBON", "Engineering", "11. Sustainability", "land use change; low ILUC; oil crops; lignocellulosic crops; advanced biofuels; sustainability; marginal land; degraded land", "ALTERNATIVE FUELS", "Biology (General)", "2. Zero hunger", "Multidisciplinary", "marginal land", "T", "Physics", "sustainability", "Engineering (General). Civil engineering (General)", "Chemistry", "Applied", "Physical Sciences", "TA1-2040", "low ILUC", "land use change", "330", "QH301-705.5", "QC1-999", "Materials Science", "Engineering", " Multidisciplinary", "Materials Science", " Multidisciplinary", "Physics", " Applied", "12. Responsible consumption", "CYCLE", "QD1-999", "BIODIESEL PRODUCTION", "0105 earth and related environmental sciences", "Science & Technology", "advanced biofuels; degraded land; land use change; lignocellulosic crops; low ILUC; marginal land; oil crops; sustainability", "15. Life on land", "AGROFORESTRY", "SOIL", "NITROGEN", "lignocellulosic crops", "YIELD", "oil crops", "13. Climate action", "CRAMBE-ABYSSINICA", "degraded land"]}, "links": [{"href": "http://www.mdpi.com/2076-3417/12/9/4623/pdf"}, {"href": "https://iris.polito.it/bitstream/11583/2995521/1/applsci-12-04623-v3.pdf"}, {"href": "https://www.mdpi.com/2076-3417/12/9/4623/pdf"}, {"href": "https://doi.org/10.3390/app12094623"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/app12094623", "name": "item", "description": "10.3390/app12094623", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/app12094623"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-05-04T00:00:00Z"}}, {"id": "10.3390/app12031330", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2022-01-26", "title": "Implementing a GIS-Based Digital Atlas of Agricultural Plastics to Reduce Their Environmental Footprint; Part I: A Deductive Approach", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>The agricultural sector has benefitted over the last century from several factors that have led to an exponential increase in its productive efficiency. The increasing use of new materials, such as plastics, has been one of the most important factors, as they have allowed for increased production in a simpler and more economical way. Various polymer types are used in different phases of the agricultural production cycle, but when their use is incorrectly managed, it can lead to different environmental impacts. In this study, an applied and simplified methodology to manage agricultural plastics monitoring and planning is proposed. The techniques used are based on quantification through the use of different datasets (orthophotos and satellite images) of the areas covered by plastics used for crop protection. The study area chosen is a part of the Ionian Coast of Southern Italy, which includes the most important municipalities of the Basilicata Region for fruit and vegetable production. The use of geographical techniques and observation methodologies, developed in an open-source GIS environment, enabled accurate location of about 2000 hectares of agricultural land covered by plastics, as well as identification of the areas most susceptible to the accumulation of plastic waste. The techniques and the model implemented, due to its simplicity of use and reliability, can be applied by different local authorities in order to realize an Atlas of agricultural plastics, which would be applied for continuous monitoring, thereby enabling the upscaling of future social and ecological impact assessments, identification of new policy impacts, market searches, etc.</p></article>", "keywords": ["Technology", "remote sensing indice", "Microplastics", "sustainable plasticulture", "0211 other engineering and technologies", "Plastic greenhouse", "02 engineering and technology", "remote sensing indices", "01 natural sciences", "630", "RPGI", "11. Sustainability", "0202 electrical engineering", " electronic engineering", " information engineering", "Biology (General)", "Agro-plastics", "plastic footprint", "2. Zero hunger", "T", "Physics", "04 agricultural and veterinary sciences", "Engineering (General). Civil engineering (General)", "plastic greenhouse", "6. Clean water", "Sustainable plasticulture", "Chemistry", "agricultural plastic surface", "Agricultural plastic surface", "agro-plastics; digital Atlas; agricultural plastic surface; remote sensing indices; RPGI; plastic footprint", "agro\u2010plastic", "TA1-2040", "microplastic", "microplastics", "330", "QH301-705.5", "Soil pollution", "QC1-999", "Plastic footprint", "digital Atla", "Agro\u2010plastic", "12. Responsible consumption", "Agricultural plastic coefficient", "QD1-999", "agro-plastics", "0105 earth and related environmental sciences", "soil pollution", "Mulching film", "mulching film", "plastic greenhouse; mulching film; microplastics; soil pollution; agricultural plastic coefficient; sustainable plasticulture", "15. Life on land", "Remote sensing indices", "agricultural plastic coefficient", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "Digital Atlas", "digital Atlas"]}, "links": [{"href": "http://www.mdpi.com/2076-3417/12/3/1330/pdf"}, {"href": "http://www.mdpi.com/2076-3417/12/15/7545/pdf"}, {"href": "https://www.mdpi.com/2076-3417/12/3/1330/pdf"}, {"href": "https://www.mdpi.com/2076-3417/12/15/7545/pdf"}, {"href": "https://doi.org/10.3390/app12031330"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/app12031330", "name": "item", "description": "10.3390/app12031330", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/app12031330"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-01-26T00:00:00Z"}}, {"id": "10.3390/app12157545", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2022-01-26", "title": "Implementing a GIS-Based Digital Atlas of Agricultural Plastics to Reduce Their Environmental Footprint: Part II, an Inductive Approach", "description": "<p>The agricultural sector has benefitted over the last century from several factors that have led to an exponential increase in its productive efficiency. The increasing use of new materials, such as plastics, has been one of the most important factors, as they have allowed for increased production in a simpler and more economical way. Various polymer types are used in different phases of the agricultural production cycle, but when their use is incorrectly managed, it can lead to different environmental impacts. In this study, an applied and simplified methodology to manage agricultural plastics monitoring and planning is proposed. The techniques used are based on quantification through the use of different datasets (orthophotos and satellite images) of the areas covered by plastics used for crop protection. The study area chosen is a part of the Ionian Coast of Southern Italy, which includes the most important municipalities of the Basilicata Region for fruit and vegetable production. The use of geographical techniques and observation methodologies, developed in an open-source GIS environment, enabled accurate location of about 2000 hectares of agricultural land covered by plastics, as well as identification of the areas most susceptible to the accumulation of plastic waste. The techniques and the model implemented, due to its simplicity of use and reliability, can be applied by different local authorities in order to realize an Atlas of agricultural plastics, which would be applied for continuous monitoring, thereby enabling the upscaling of future social and ecological impact assessments, identification of new policy impacts, market searches, etc.</p>", "keywords": ["Technology", "remote sensing indice", "Microplastics", "sustainable plasticulture", "0211 other engineering and technologies", "Plastic greenhouse", "02 engineering and technology", "remote sensing indices", "01 natural sciences", "630", "RPGI", "11. Sustainability", "0202 electrical engineering", " electronic engineering", " information engineering", "Biology (General)", "Agro-plastics", "plastic footprint", "2. Zero hunger", "T", "Physics", "04 agricultural and veterinary sciences", "Engineering (General). Civil engineering (General)", "plastic greenhouse", "6. Clean water", "Sustainable plasticulture", "Chemistry", "agricultural plastic surface", "Agricultural plastic surface", "agro-plastics; digital Atlas; agricultural plastic surface; remote sensing indices; RPGI; plastic footprint", "agro\u2010plastic", "TA1-2040", "microplastic", "microplastics", "330", "QH301-705.5", "Soil pollution", "QC1-999", "Plastic footprint", "digital Atla", "Agro\u2010plastic", "12. Responsible consumption", "Agricultural plastic coefficient", "QD1-999", "agro-plastics", "0105 earth and related environmental sciences", "soil pollution", "Mulching film", "mulching film", "plastic greenhouse; mulching film; microplastics; soil pollution; agricultural plastic coefficient; sustainable plasticulture", "15. Life on land", "Remote sensing indices", "agricultural plastic coefficient", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "Digital Atlas", "digital Atlas"]}, "links": [{"href": "http://www.mdpi.com/2076-3417/12/3/1330/pdf"}, {"href": "http://www.mdpi.com/2076-3417/12/15/7545/pdf"}, {"href": "https://www.mdpi.com/2076-3417/12/3/1330/pdf"}, {"href": "https://www.mdpi.com/2076-3417/12/15/7545/pdf"}, {"href": "https://doi.org/10.3390/app12157545"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/app12157545", "name": "item", "description": "10.3390/app12157545", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/app12157545"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-01-26T00:00:00Z"}}, {"id": "10.3390/app13010612", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2023-01-02", "title": "Prospective Scenarios for Addressing the Agricultural Plastic Waste Issue: Results of a Territorial Analysis", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Agricultural activities have been positively affected by the use of plastic products, but this has resulted in the production of plastic waste and led to an increase in environmental pollution. To continue benefiting from the use of plastics but addressing at the same time the environmental issue, two strategies seem viable: the development of technologies for extending plastics lifespan and the gradual replacement of traditional non-biodegradable materials by biodegradable ones, at least for some products. This study focuses on a territorial analysis, performed using a Geographic Information System (GIS) in an agricultural area of the Apulia region (southern Italy). Areas of agricultural plastic waste production were identified through land-use maps. The application of plastic waste indices to different crop types and plastic products allowed quantifying and georeferencing actual plastic waste production. From this actual visualization, the other strategies were obtained by properly managing the indices. Two improved scenarios were obtained, the first consisted of extending the lifespan of some plastics, and the second entailed the introduction of some biodegradable alternatives. About 11,103 tons of agricultural plastic waste are yearly produced in the area and 7450 tons come from covering films. Lifespan extension would reduce the annual waste amount by about 25%, while more alternative products are needed to achieve significant results in the second scenario.</p></article>", "keywords": ["Technology", "QH301-705.5", "QC1-999", "plastic detection", "01 natural sciences", "12. Responsible consumption", "Land Use", "11. Sustainability", "Biology (General)", "Waste management", "QD1-999", "0105 earth and related environmental sciences", "2. Zero hunger", "products lifespan", "T", "Physics", "sustainability; GIS; land use; plastic detection; waste management; biodegradable plastic; products lifespan", "land use", "Plastic detection", "04 agricultural and veterinary sciences", "biodegradable plastic", "15. Life on land", "Biodegradable plastic", "sustainability", "GIS", "Engineering (General). Civil engineering (General)", "Chemistry", "Sustainability", "13. Climate action", "Products lifespan", "0401 agriculture", " forestry", " and fisheries", "waste management", "TA1-2040"]}, "links": [{"href": "http://www.mdpi.com/2076-3417/13/1/612/pdf"}, {"href": "https://www.mdpi.com/2076-3417/13/1/612/pdf"}, {"href": "https://doi.org/10.3390/app13010612"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/app13010612", "name": "item", "description": "10.3390/app13010612", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/app13010612"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-01-02T00:00:00Z"}}, {"id": "10.3390/app10176132", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2020-09-03", "title": "Visualizations of Uncertainties in Precision Agriculture: Lessons Learned from Farm Machinery", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Detailed measurements of yield values are becoming a common practice in precision agriculture. Field harvesters generate point Big Data as they provide yield measurements together with dozens of complex attributes in a frequency of up to one second. Such a flood of data brings uncertainties caused by several factors: accuracy of the positioning system used, trajectory overlaps, raising the cutting bar due to obstacles or unevenness, and so on. This paper deals with 2D and 3D cartographic visualizations of terrain, measured yield, and its uncertainties. Four graphic variables were identified as credible for visualizations of uncertainties in point Big Data. Data from two plots at a fully operational farm were used for this purpose. ISO 19157 was examined for its applicability and a proof-of-concept for selected uncertainty expression was defined. Special attention was paid to spatial pattern interpretations.</p></article>", "keywords": ["point Big Data", "Technology", "QH301-705.5", "T", "Physics", "QC1-999", "0211 other engineering and technologies", "interactive 3D visualization", "ISO 19157", "02 engineering and technology", "Engineering (General). Civil engineering (General)", "uncertainty expression", "Chemistry", "yield measurements", "0202 electrical engineering", " electronic engineering", " information engineering", "TA1-2040", "Biology (General)", "QD1-999"]}, "links": [{"href": "http://www.mdpi.com/2076-3417/10/17/6132/pdf"}, {"href": "https://www.mdpi.com/2076-3417/10/17/6132/pdf"}, {"href": "https://doi.org/10.3390/app10176132"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/app10176132", "name": "item", "description": "10.3390/app10176132", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/app10176132"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-09-03T00:00:00Z"}}, {"id": "10.3390/app11062644", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2021-03-16", "title": "Numerical Insight into the Kelvin-Helmholtz Instability Appearance in Cavitating Flow", "description": "<p>Recently the development of Kelvin-Helmholtz instability in cavitating flow in Venturi microchannels was discovered. Its importance is not negligible, as it destabilizes the shear layer and promotes instabilities and turbulent eddies formation in the vapor region, having low density and momentum. In the present paper, we give a very brief summary of the experimental findings and in the following, we use a computational fluid dynamics (CFD) study to peek deeper into the onset of the Kelvin-Helmholtz instability and its effect on the dynamics of the cavitation cloud shedding. Finally, it is shown that Kelvin-Helmholtz instability is beside the re-entrant jet and the condensation shock wave the third mechanism of cavitation cloud shedding in Venturi microchannels. The shedding process is quasi-periodic.</p>", "keywords": ["Kelvin-Helmholtz instability", "Technology", "mikrokanali", "QH301-705.5", "T", "Physics", "QC1-999", "Engineering (General). Civil engineering (General)", "01 natural sciences", "Kelvin-Helmholtzova nestabilnost", "kavitacija", "Chemistry", "cavitation", "numerical simulation", "numeri\u010dne simulacije", "0103 physical sciences", "microchannel", "14. Life underwater", "info:eu-repo/classification/udc/519.876.5:532.528(045)", "TA1-2040", "Biology (General)", "QD1-999"]}, "links": [{"href": "http://www.mdpi.com/2076-3417/11/6/2644/pdf"}, {"href": "https://www.mdpi.com/2076-3417/11/6/2644/pdf"}, {"href": "https://doi.org/10.3390/app11062644"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/app11062644", "name": "item", "description": "10.3390/app11062644", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/app11062644"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-03-16T00:00:00Z"}}, {"id": "10.3390/app11062746", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2021-03-19", "title": "Halophyte Plants and Their Residues as Feedstock for Biogas Production\u2014Chances and Challenges", "description": "<p>The importance of green technologies is steadily growing. Salt-tolerant plants have been proposed as energy crops for cultivation on saline lands. Halophytes such as Salicornia europaea, Tripolium pannonicum, Crithmum maritimum and Chenopodium quinoa, among many other species, can be cultivated in saline lands, in coastal areas or for treating saline wastewater, and the biomass might be used for biogas production as an integrated process of biorefining. However, halophytes have different salt tolerance mechanisms, including compartmentalization of salt in the vacuole, leading to an increase of sodium in the plant tissues. The sodium content of halophytes may have an adverse effect on the anaerobic digestion process, which needs adjustments to achieve stable and efficient conversion of the halophytes into biogas. This review gives an overview of the specificities of halophytes that needs to be accounted for using their biomass as feedstocks for biogas plants in order to expand renewable energy production. First, the different physiological mechanisms of halophytes to grow under saline conditions are described, which lead to the characteristic composition of the halophyte biomass, which may influence the biogas production. Next, possible mechanisms to avoid negative effects on the anaerobic digestion process are described, with an overview of full-scale applications. Taking all these aspects into account, halophyte plants have a great potential for biogas and methane production with yields similar to those produced by other energy crops and the simultaneous benefit of utilization of saline soils.</p>", "keywords": ["anaerobic digestion", "0301 basic medicine", "Technology", "Inoculum adaptation", "QH301-705.5", "QC1-999", "Plant physiology", "Salicornia europaea", "Co-digestion", "7. Clean energy", "biogas production", "03 medical and health sciences", "Anaerobic digestion", "co-digestion", "Biology (General)", "Chenopodium quinoa", "QD1-999", "<i>Crithmum maritimum</i>", "2. Zero hunger", "0303 health sciences", "T", "Physics", "Sa-linity", "Crithmum maritimum", "Tripolium pannonicum", "15. Life on land", "Engineering (General). Civil engineering (General)", "Biogas production", "Dewey Decimal Classification::600 | Technik", "6. Clean water", "<i>Chenopodium quinoa</i>", "Chemistry", "13. Climate action", "TA1-2040", "Halophyte composition", "halophyte composition"]}, "links": [{"href": "https://www.mdpi.com/2076-3417/11/6/2746/pdf"}, {"href": "https://doi.org/10.3390/app11062746"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/app11062746", "name": "item", "description": "10.3390/app11062746", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/app11062746"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-03-18T00:00:00Z"}}, {"id": "10.3390/app12010341", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2021-12-31", "title": "Replacing Mineral Fertilisers for Bio-Based Fertilisers in Potato Growing on Sandy Soil: A Case Study", "description": "<p>The refinement level of bio-based fertilisers (BBFs) can influence environmental and agronomic performance. This study analyses the environmental and agronomic effect of different BBFs on potato growing in sandy soil. A less refined product (liquid fraction of digestate (LFD)), two refined products (ammonium sulphate (AS) and potassium concentrate (KC)), and mineral fertilizer (MF) are compared by conducting: (i) a nitrogen (N) incubation experiment where the N release rate of the BBFs is determined, (ii) a greenhouse gas emission experiment where N2O, CO2, and CH4 emissions after BBF application are measured, (iii) a pot experiment where the nutrient fertiliser replacement value (NFRV) of the BBF is calculated, and (iv) a full-scale field trial where the potato quality and quantity and the remaining N residues in the soil after harvest are assessed. The N release rate and the NFRV of AS (142 \uffc2\uffb1 19% and 1.13, respectively) was higher compared with the LFD (113 \uffc2\uffb1 24% and 1.04) and MF (105 \uffc2\uffb1 16% and 1.00). Lowest N2O emissions were observed after the application of the less refined product (0.02 \uffc2\uffb1 0.01 per 100 g N applied) and highest for MF urea (0.11 \uffc2\uffb1 0.02 per 100 g N applied). In the full-scale field trial, no significant difference in potato yield was observed in the plots that received manure in combination with BBF or MF. This study showed that all three BBFs can safely be used in potato growing on sandy soils. However, the adoption of BBFs can be stimulated by (i) solving the practical issues that occurred during the application of LFD, (ii) making sure BBFs are on the list of RENURE materials so they can legally replace mineral fertiliser, and (iii) reducing the surplus of slurry manure to stimulate the use and fair pricing of BBF products.</p>", "keywords": ["Agriculture and Food Sciences", "Technology", "QH301-705.5", "QC1-999", "NITROUS-OXIDE EMISSIONS", "environmental impact", "Environmental impact", "agricultural circularity", "Biology (General)", "agricultural circularity; sustainable agriculture; environmental impact; manure processing; GHG emissions; fertiliser replacement value", "QD1-999", "manure processing", "fertiliser replacement value", "2. Zero hunger", "Fertiliser replacement value", "MANURE", "Agricultural circularity", "T", "Physics", "Sustainable agriculture", "04 agricultural and veterinary sciences", "Engineering (General). Civil engineering (General)", "6. Clean water", "sustainable agriculture", "GHG emissions", "Chemistry", "13. Climate action", "Earth and Environmental Sciences", "RESIDUES", "0401 agriculture", " forestry", " and fisheries", "TA1-2040", "Manure processing", "NITRATE"]}, "links": [{"href": "http://www.mdpi.com/2076-3417/12/1/341/pdf"}, {"href": "https://www.mdpi.com/2076-3417/12/1/341/pdf"}, {"href": "https://doi.org/10.3390/app12010341"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/app12010341", "name": "item", "description": "10.3390/app12010341", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/app12010341"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-12-30T00:00:00Z"}}, {"id": "10.3390/app12020840", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2022-01-14", "title": "Extraction and Quantification of Chlorophylls, Carotenoids, Phenolic Compounds, and Vitamins from Halophyte Biomasses", "description": "<p>Halophytes are salt-tolerant plants, and they have been utilised as healthy, nutritious vegetables and medicinal herbs. Various studies have shown halophytes to be rich in health-beneficial compounds with antioxidant activity, anti-inflammatory and antimicrobial effects, and cytotoxic properties. Despite their potential, these plants are still underutilised in agriculture and industrial applications. This review includes the state-of-the-art literature concerning the contents of proanthocyanidins (also known as condensed tannins), total phenolic compounds, photosynthetic pigments (chlorophyll and carotenoids), and vitamins in various halophyte biomasses. Various extraction and analytical methods are also considered. The study shows that various species have exhibited potential for use not only as novel food products but also in the production of nutraceuticals and as ingredients for cosmetics and pharmaceuticals.</p>", "keywords": ["Pigments", "2. Zero hunger", "0301 basic medicine", "Technology", "0303 health sciences", "saline cultivation", "QH301-705.5", "halophytes", "pigments", "phenolics", "T", "Physics", "QC1-999", "Saline cultivation", "Bioactive molecules", "Engineering (General). Civil engineering (General)", "Chemistry", "03 medical and health sciences", "Halophytes", "bioactive molecules", "Phenolics", "TA1-2040", "Biology (General)", "QD1-999"]}, "links": [{"href": "https://www.mdpi.com/2076-3417/12/2/840/pdf"}, {"href": "https://doi.org/10.3390/app12020840"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/app12020840", "name": "item", "description": "10.3390/app12020840", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/app12020840"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-01-14T00:00:00Z"}}, {"id": "10.3390/app12146944", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2022-07-08", "title": "Portable X-ray Fluorescence Analysis of Organic Amendments: A Review", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Portable XRF spectrometry (pXRF) has recently undergone significant technological improvements and is being applied in a wide range of studies. Despite pXRF advantages, this technique has rarely been used to characterize organic amendments and residues. This article reviews those studies undertaken to date in which pXRF is used to characterize these products. Published studies show that pXRF correctly measures elements such as Fe, Pb, Zn, Mn, Ca, and K but gives conflicting results for elements such as Cr, Ni, and As. Among the reasons that may cause the low performance of the technique with certain elements or under certain measurement conditions would be the inadequacy of the analytical comparison procedures used (i.e., digestion with aqua regia), the lack of knowledge of the interfering effects of organic matter, and sample moisture on the XRF signals and the need for a standardized protocol for performing the measurements. However, the speed and low cost of the procedure forecast a greater future use of this technique, especially in cooperation with other fast spectroscopic techniques based on near-infrared (NIRS) or mid-infrared (MIR) spectroscopies. Chemometric procedures based on one or more of these techniques will allow the prediction of elements below the detection limit of pXRF instruments (Cd, Hg), or other properties of organic amendments (organic matter, N, electrical conductivity, cation exchange capacity).</p></article>", "keywords": ["compost", "Technology", "pXRF", "QH301-705.5", "T", "Physics", "QC1-999", "biosolids", "Hand-held XRF", "hand-held XRF", "Compost", "04 agricultural and veterinary sciences", "Engineering (General). Civil engineering (General)", "01 natural sciences", "Manure", "Chemistry", "Biosolids", "manure", "0401 agriculture", " forestry", " and fisheries", "TA1-2040", "Biology (General)", "QD1-999", "0105 earth and related environmental sciences"], "contacts": [{"organization": "Rafael L\u00f3pez-N\u00fa\u00f1ez", "roles": ["creator"]}]}, "links": [{"href": "https://www.mdpi.com/2076-3417/12/14/6944/pdf"}, {"href": "https://doi.org/10.3390/app12146944"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/app12146944", "name": "item", "description": "10.3390/app12146944", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/app12146944"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-07-08T00:00:00Z"}}, {"id": "10.3390/bioengineering4020055", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2017-06-12", "title": "Recent Advances and Challenges towards Sustainable Polyhydroxyalkanoate (PHA) Production", "description": "<p>Sustainable biofuels, biomaterials, and fine chemicals production is a critical matter that research teams around the globe are focusing on nowadays. Polyhydroxyalkanoates represent one of the biomaterials of the future due to their physicochemical properties, biodegradability, and biocompatibility. Designing efficient and economic bioprocesses, combined with the respective social and environmental benefits, has brought together scientists from different backgrounds highlighting the multidisciplinary character of such a venture. In the current review, challenges and opportunities regarding polyhydroxyalkanoate production are presented and discussed, covering key steps of their overall production process by applying pure and mixed culture biotechnology, from raw bioprocess development to downstream processing.</p>", "keywords": ["0106 biological sciences", "0301 basic medicine", "Technology", "Renewable feedstock", "QH301-705.5", "biopolymers", "Review", "7. Clean energy", "01 natural sciences", "12. Responsible consumption", "mixed microbial consortia", "03 medical and health sciences", "Biopolymers", "/dk/atira/pure/sustainabledevelopmentgoals/affordable_and_clean_energy; name=SDG 7 - Affordable and Clean Energy", "renewable feedstock", "Pure cultures", "pure cultures", "enrichment strategy", "Biology (General)", "Synthetic biology", "Polyhydroxyalkanoates", "T", "polyhydroxyalkanoates", "Mixed microbial consortia", "downstream processing", "Downstream processing", "13. Climate action", "Enrichment strategy", "synthetic biology"]}, "links": [{"href": "http://www.mdpi.com/2306-5354/4/2/55/pdf"}, {"href": "https://doi.org/10.3390/bioengineering4020055"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Bioengineering", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/bioengineering4020055", "name": "item", "description": "10.3390/bioengineering4020055", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/bioengineering4020055"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-06-11T00:00:00Z"}}, {"id": "10.3390/bioengineering6030080", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2019-09-09", "title": "Comparison of Dry Versus Wet Milling to Improve Bioethanol or Methane Recovery from Solid Anaerobic Digestate", "description": "<p>Biogas plants for waste treatment valorization are presently experiencing rapid development, especially in the agricultural sector, where large amounts of digestate are being generated. In this study, we investigated the effect of vibro-ball milling (VBM) for 5 and 30 min at a frequency of 20 s\uffe2\uff88\uff921 on the physicochemical composition and enzymatic hydrolysis (30 U g\uffe2\uff88\uff921 total solids (TS) of cellulase and endo-1,4-xylanase from Trichoderma longibrachiatum) of dry and wet solid separated digestates from an agricultural biogas plant. We found that VBM of dry solid digestate improved the physical parameters as both the particle size and the crystallinity index (from 27% to 75%) were reduced. By contrast, VBM of wet solid digestate had a minimal effect on the physicochemical parameters. The best results in terms of cellulose and hemicelluloses hydrolysis were noted for 30 min of VBM of dry solid digestate, with hydrolysis yields of 64% and 85% for hemicelluloses and cellulose, respectively. At the condition of 30 min of VBM, bioethanol and methane production on the dry solid separated digestate was investigated. Bioethanol fermentation by simultaneous saccharification and fermentation resulted in an ethanol yield of 98 geth kg\uffe2\uff88\uff921 TS (corresponding to 90% of the theoretical value) versus 19 geth kg\uffe2\uff88\uff921 TS for raw solid digestate. Finally, in terms of methane potential, VBM for 30 min lead to an increase of the methane potential of 31% compared to untreated solid digestate.</p>", "keywords": ["anaerobic digestion", "Technology", "[SDV.BIO]Life Sciences [q-bio]/Biotechnology", "QH301-705.5", "sugars recovery", "Biotechnologies", "7. Clean energy", "01 natural sciences", "Article", "milling process", "12. Responsible consumption", "Autre (Chimie)", "Biology (General)", "solid digestate", "0105 earth and related environmental sciences", "660", "T", "bioethanol production ; sugars recovery ; energy balances ; solid digestate ; milling process ; anaerobic digestion", "anaerobic digestion;solid digestate;milling process;sugars recovery;energy balances;bioethanol production", "600", "540", "energy balances", "6. Clean water", "[SDV.BIO] Life Sciences [q-bio]/Biotechnology", "[CHIM.OTHE] Chemical Sciences/Other", "bioethanol production", "Other", "[CHIM.OTHE]Chemical Sciences/Other"]}, "links": [{"href": "http://www.mdpi.com/2306-5354/6/3/80/pdf"}, {"href": "https://www.mdpi.com/2306-5354/6/3/80/pdf"}, {"href": "https://doi.org/10.3390/bioengineering6030080"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Bioengineering", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/bioengineering6030080", "name": "item", "description": "10.3390/bioengineering6030080", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/bioengineering6030080"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-09-06T00:00:00Z"}}, {"id": "10.3390/biology10030204", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2021-03-09", "title": "Cultivating Multidisciplinarity: Manufacturing and Sensing Challenges in Cultured Meat Production", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p>Meat cultivation via cellular agriculture holds great promise as a method for future food production. In theory, it is an ideal way of meat production, humane to the animals and sustainable for the environment, while keeping the same taste and nutritional values as traditional meat and having additional benefits such as controlled fat content and absence of antibiotics and hormones used in the traditional meat industry. However, in practice, there is still a number of challenges, such as those associated with the upscale of cultured meat (CM). CM food safety monitoring is a necessary factor when envisioning both the regulatory compliance and consumer acceptance. To achieve this, a multidisciplinary approach is necessary. This includes extensive development of the sensitive and specific analytical devices i.e., sensors to enable reliable food safety monitoring throughout the whole future food supply chain. In addition, advanced monitoring options can help in the further optimization of the meat cultivation which may reduce the currently still high costs of production. This review presents an overview of the sensor monitoring options for the most relevant parameters of importance for meat cultivation. Examples of the various types of sensors that can potentially be used in CM production are provided and the options for their integration into bioreactors, as well as suggestions on further improvements and more advanced integration approaches. In favor of the multidisciplinary approach, we also include an overview of the bioreactor types, scaffolding options as well as imaging techniques relevant for CM research. Furthermore, we briefly present the current status of the CM research and related regulation, societal aspects and challenges to its upscaling and commercialization.</p></article>", "keywords": ["2. Zero hunger", "0301 basic medicine", "0303 health sciences", "QH301-705.5", "Review", "15. Life on land", "sensors", "12. Responsible consumption", "monitoring", "bioreactor", "03 medical and health sciences", "cultivated meat", "13. Climate action", "cultured meat", "11. Sustainability", "cellular agriculture", "Biology (General)", "cultivated meat", " cultured meat", " sensors", " cellular agriculture", " modeling"]}, "links": [{"href": "https://www.mdpi.com/2079-7737/10/3/204/pdf"}, {"href": "https://doi.org/10.3390/biology10030204"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/biology10030204", "name": "item", "description": "10.3390/biology10030204", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/biology10030204"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-03-09T00:00:00Z"}}, {"id": "10.3390/biology10100982", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2021-09-30", "title": "Introducing Beneficial Alleles from Plant Genetic Resources into the Wheat Germplasm", "description": "<p>Wheat (Triticum sp.) is one of the world\uffe2\uff80\uff99s most important crops, and constantly increasing its productivity is crucial to the livelihoods of millions of people. However, more than a century of intensive breeding and selection processes have eroded genetic diversity in the elite genepool, making new genetic gains difficult. Therefore, the need to introduce novel genetic diversity into modern wheat has become increasingly important. This review provides an overview of the plant genetic resources (PGR) available for wheat. We describe the most important taxonomic and phylogenetic relationships of these PGR to guide their use in wheat breeding. In addition, we present the status of the use of some of these resources in wheat breeding programs. We propose several introgression schemes that allow the transfer of qualitative and quantitative alleles from PGR into elite germplasm. With this in mind, we propose the use of a stage-gate approach to align the pre-breeding with main breeding programs to meet the needs of breeders, farmers, and end-users. Overall, this review provides a clear starting point to guide the introgression of useful alleles over the next decade.</p>", "keywords": ["0301 basic medicine", "2. Zero hunger", "0303 health sciences", "QH301-705.5", "crop wild relatives; pre-breeding; crop improvement; germplasm enhancement; Aegilops; Triticum; plant genetic resources; genebank", "germplasm enhancement", "Review", "15. Life on land", "crop improvement", "crop wild relatives", "<i>Triticum</i>", "03 medical and health sciences", "pre-breeding", "<i>Aegilops</i>", "Biology (General)"]}, "links": [{"href": "https://www.mdpi.com/2079-7737/10/10/982/pdf"}, {"href": "https://doi.org/10.3390/biology10100982"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/biology10100982", "name": "item", "description": "10.3390/biology10100982", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/biology10100982"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-09-29T00:00:00Z"}}, {"id": "10.3390/biology11040519", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-07-25T16:20:56Z", "type": "Journal Article", "created": "2022-03-30", "title": "Genome characterisation of an isoprene-degrading Alcaligenes sp. isolated from a tropical restored forest", "description": "<p>Isoprene is a climate-active biogenic volatile organic compound (BVOC), emitted into the atmosphere in abundance, mainly from terrestrial plants. Soil is an important sink for isoprene due to its consumption by microbes. In this study, we report the ability of a soil bacterium to degrade isoprene. Strain 13f was isolated from soil beneath wild Himalayan cherry trees in a tropical restored forest. Based on phylogenomic analysis and an Average Nucleotide Identity score of &gt;95%, it most probably belongs to the species Alcaligenes faecalis. Isoprene degradation by Alcaligenes sp. strain 13f was measured by using gas chromatography. When isoprene was supplied as the sole carbon and energy source at the concentration of 7.2 \uffc3\uff97 105 ppbv and 7.2 \uffc3\uff97 106 ppbv, 32.6% and 19.6% of isoprene was consumed after 18 days, respectively. Genome analysis of Alcaligenes sp. strain 13f revealed that the genes that are typically found as part of the isoprene monooxygenase gene cluster in other isoprene-degrading bacteria were absent. This discovery suggests that there may be alternative pathways for isoprene metabolism.</p>", "keywords": ["0301 basic medicine", "0303 health sciences", "550", "QH301-705.5", "<i>Alcaligenes</i>", "15. Life on land", "climate-active gas", "630", "Article", "03 medical and health sciences", "isoprene; climate-active gas; isoprene degradation; genome; <i>Alcaligenes</i>", "isoprene degradation", "Biology (General)", "isoprene", "genome"]}, "links": [{"href": "http://www.mdpi.com/2079-7737/11/4/519/pdf"}, {"href": "https://ueaeprints.uea.ac.uk/id/eprint/84897/1/biology_11_00519.pdf"}, {"href": "https://www.mdpi.com/2079-7737/11/4/519/pdf"}, {"href": "https://repository.essex.ac.uk/33476/1/biology-11-00519.pdf"}, {"href": "https://doi.org/10.3390/biology11040519"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/biology11040519", "name": "item", "description": "10.3390/biology11040519", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/biology11040519"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-03-28T00:00:00Z"}}], "links": [{"rel": "self", "type": "application/geo+json", "title": "This document as GeoJSON", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=Biology+%28General%29&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=Biology+%28General%29&f=html", "hreflang": "en-US"}, {"rel": "collection", "type": "application/json", "title": "Collection URL", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main", "hreflang": "en-US"}, {"type": "application/geo+json", "rel": "first", "title": "items (first)", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=Biology+%28General%29&", "hreflang": "en-US"}, {"rel": "next", "type": "application/geo+json", "title": "items (next)", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=Biology+%28General%29&offset=50", "hreflang": "en-US"}], "numberMatched": 178, "numberReturned": 50, "distributedFeatures": [], "timeStamp": "2026-07-26T02:59:50.505147Z"}