Establishing Lupinus mutabilis as a protein and oil crop requires improved varieties adapted to EU climates. The genetic regulation of strategic breeding traits, including plant architecture, growing cycle length and yield, is unknown. This study aimed to identify associations between 16 669 single nucleotide polymorphisms (SNPs) and 9 agronomic traits on a panel of 223 L. mutabilis accessions, grown in four environments, by applying a genome wide association study (GWAS). Seven environment-specific QTLs linked to vegetative yield, plant height, pods number and flowering time, were identified as major effect QTLs, being able to capture 6 to 20% of the phenotypic variation observed in these traits. Furthermore, two QTLs across environments were identified for flowering time on chromosome 8. The genes FAF, GAMYB and LNK, regulating major pathways involved in flowering and growth habit, as well as GA30X1, BIM1, Dr1, HDA15, HAT3, interacting with these pathways in response to hormonal and environmental cues, were prosed as candidate genes. These results are pivotal to accelerate the development of L. mutabilis varieties adapted to European cropping conditions by using marker-assisted selection (MAS), as well as to provide a framework for further functional studies on plant development and phenology in this species.Biochar amendment is one of the most promising agricultural approaches to tackle climate change by enhancing soil carbon (C) sequestration. Microbial\uffe2\uff80\uff90mediated decomposition processes are fundamental for the fate and persistence of sequestered C in soil, but the underlying mechanisms are uncertain. Here, we synthesise 923 observations regarding the effects of biochar addition (over periods ranging from several weeks to several years) on soil C\uffe2\uff80\uff90degrading enzyme activities from 130 articles across five continents worldwide. Our results showed that biochar addition increased soil ligninase activity targeting complex phenolic macromolecules by 7.1%, but suppressed cellulase activity degrading simpler polysaccharides by 8.3%. These shifts in enzyme activities explained the most variation of changes in soil C sequestration across a wide range of climatic, edaphic and experimental conditions, with biochar\uffe2\uff80\uff90induced shift in ligninase:cellulase ratio correlating negatively with soil C sequestration. Specifically, short\uffe2\uff80\uff90term (<1\uffc2\uffa0year) biochar addition significantly reduced cellulase activity by 4.6% and enhanced soil organic C sequestration by 87.5%, whereas no significant responses were observed for ligninase activity and ligninase:cellulase ratio. However, long\uffe2\uff80\uff90term (\uffe2\uff89\uffa51\uffc2\uffa0year) biochar addition significantly enhanced ligninase activity by 5.2% and ligninase:cellulase ratio by 36.1%, leading to a smaller increase in soil organic C sequestration (25.1%). These results suggest that shifts in enzyme activities increased ligninase:cellulase ratio with time after biochar addition, limiting long\uffe2\uff80\uff90term soil C sequestration with biochar addition. Our work provides novel evidence to explain the diminished soil C sequestration with long\uffe2\uff80\uff90term biochar addition and suggests that earlier studies may have overestimated soil C sequestration with biochar addition by failing to consider the physiological acclimation of soil microorganisms over time.Dissolved organic matter (DOM) composition exerts a direct control on its degradation and subsequent persistence in aquatic ecosystems. Yet, under certain conditions, the degradation patterns of DOM cannot be solely explained by its composition, highlighting the relevance of environmental conditions for DOM degradation. Here, we experimentally assessed the relative influence of composition vs. environment on DOM degradation by performing degradation bioassays using three contrasting DOM sources inoculated with a standardized bacterial inoculum under five distinct environments. The DOM degradation kinetics modeled using reactivity continuum models showed that composition was more important than environment in determining the bulk DOM decay patterns. Changes in DOM composition resulted from the interaction between DOM source and environment. The role of environment was stronger on shaping the bacterial community composition, but the intrinsic nature of the DOM source exerted stronger control on the DOM degradation function.
", "keywords": ["LAKES", "0301 basic medicine", "550", "[SDE.MCG]Environmental Sciences/Global Changes", "Oceanografi", " hydrologi och vattenresurser", "COMMUNITY COMPOSITION", "CARBON", "River sediments", "Oceanography", " Hydrology and Water Resources", "03 medical and health sciences", "Compostos org\u00e0nics", "[SDV.EE]Life Sciences [q-bio]/Ecology", "[CHIM] Chemical Sciences", "Organic compounds", "RIVER", "[CHIM]Chemical Sciences", "14. Life underwater", "DOM", "Ecologia fluvial", "0303 health sciences", "MOLECULAR SIGNATURES", "PERSISTENCE", "Sediments fluvials", "SHIFTS", "6. Clean water", "Stream ecology", "[SDE.BE] Environmental Sciences/Biodiversity and Ecology", "[SDE.MCG] Environmental Sciences/Global Changes", "[SDV.EE] Life Sciences [q-bio]/Ecology", " environment", "FLUORESCENCE SPECTROSCOPY", "13. Climate action", "PATTERNS", "[SDE.BE]Environmental Sciences/Biodiversity and Ecology", "environment"]}, "links": [{"href": "https://aslopubs.onlinelibrary.wiley.com/doi/pdf/10.1002/lno.11606"}, {"href": "https://doi.org/10.1002/lno.11606"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Limnology%20and%20Oceanography", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1002/lno.11606", "name": "item", "description": "10.1002/lno.11606", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1002/lno.11606"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-09-25T00:00:00Z"}}, {"id": "10.1002/lom3.10364", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:14:10Z", "type": "Journal Article", "created": "2020-06-05", "title": "An international laboratory comparison of dissolved organic matter composition by high resolution mass spectrometry: Are we getting the same answer?", "description": "AbstractHigh\uffe2\uff80\uff90resolution mass spectrometry (HRMS) has become a vital tool for dissolved organic matter (DOM) characterization. The upward trend in HRMS analysis of DOM presents challenges in data comparison and interpretation among laboratories operating instruments with differing performance and user operating conditions. It is therefore essential that the community establishes metric ranges and compositional trends for data comparison with reference samples so that data can be robustly compared among research groups. To this end, four identically prepared DOM samples were each measured by 16 laboratories, using 17 commercially purchased instruments, using positive\uffe2\uff80\uff90ion and negative\uffe2\uff80\uff90ion mode electrospray ionization (ESI) HRMS analyses. The instruments identified ~1000 common ions in both negative\uffe2\uff80\uff90 and positive\uffe2\uff80\uff90ion modes over a wide range of m/z values and chemical space, as determined by van Krevelen diagrams. Calculated metrics of abundance\uffe2\uff80\uff90weighted average indices (H/C, O/C, aromaticity, and m/z) of the commonly detected ions showed that hydrogen saturation and aromaticity were consistent for each reference sample across the instruments, while average mass and oxygenation were more affected by differences in instrument type and settings. In this paper we present 32 metric values for future benchmarking. The metric values were obtained for the four different parameters from four samples in two ionization modes and can be used in future work to evaluate the performance of HRMS instruments.1 mol% of total biomass showed statistically significant treatment responses. PCA ordinated forest types and treatment responses along three axes (36%, 26%, 12% of variance). EEA factors 1 and 2 correlated negatively with PLFA factor 1 ( r = -0.20 and -0.35, respectively, n = 108) and positively with PLFA factor 3 ( r = +0.36 and +0.20, respectively, n = 108). In general, EEA responses were more strongly tied to changes in bacterial PLFA than to changes in fungal PLFA. Collectively, our data suggests that N inhibition of oxidative activity involves more than the repression of ligninase expression by white-rot basidiomycetes.", "keywords": ["Michigan", "Nitrogen", "Science", "Ecology and Evolutionary Biology", "Nature Conservation", "Microbiology", "Trees", "Soil", "Geoecology/Natural Processes", "Health Sciences", "Cellular and Developmental Biology", "Ecosystem", "Phospholipids", "Soil Microbiology", "2. Zero hunger", "Analysis of Variance", "Principal Component Analysis", "Ecology", "Life Sciences", "Natural Resources and Environment", "Molecular", "04 agricultural and veterinary sciences", "15. Life on land", "Enzymes", "13. Climate action", "0401 agriculture", " forestry", " and fisheries"]}, "links": [{"href": "https://doi.org/10.1007/s00248-003-9001-x"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microbial%20Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00248-003-9001-x", "name": "item", "description": "10.1007/s00248-003-9001-x", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00248-003-9001-x"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2004-04-19T00:00:00Z"}}, {"id": "10.1007/s00248-007-9276-4", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:14:22Z", "type": "Journal Article", "created": "2007-07-17", "title": "Comparison Of Soil Bacterial Communities Under Diverse Agricultural Land Management And Crop Production Practices", "description": "The composition and structure of bacterial communities were examined in soil subjected to a range of diverse agricultural land management and crop production practices. Length heterogeneity polymerase chain reaction (LH-PCR) of bacterial DNA extracted from soil was used to generate amplicon profiles that were analyzed with univariate and multivariate statistical methods. Five land management programs were initiated in July 2000: conventional, organic, continuous removal of vegetation (disk fallow), undisturbed (weed fallow), and bahiagrass pasture (Paspalum notatum var Argentine). Similar levels in the diversity of bacterial 16S rDNA amplicons were detected in soil samples collected from organically and conventionally managed plots 3 and 4 years after initiation of land management programs, whereas significantly lower levels of diversity were observed in samples collected from bahiagrass pasture. Differences in diversity were attributed to effects on how the relative abundance of individual amplicons were distributed (evenness) and not on the total numbers of bacterial 16S rDNA amplicons detected (richness). Similar levels of diversity were detected among all land management programs in soil samples collected after successive years of tomato (Lycopersicon esculentum) cultivation. A different trend was observed after a multivariate examination of the similarities in genetic composition among soil bacterial communities. After 3 years of land management, similarities in genetic composition of soil bacterial communities were observed in plots where disturbance was minimized (bahiagrass and weed fallow). The genetic compositions in plots managed organically were similar to each other and distinct from bacterial communities in other land management programs. After successive years of tomato cultivation and damage from two major hurricanes, only the composition of soil bacterial communities within organically managed plots continued to maintain a high degree of similarity to each other and remain distinct from other bacterial communities. This study reveals the effects of agricultural land management practices on soil bacterial community composition and diversity in a large-scale, long-term replicated study where the effect of soil type on community attributes was removed.", "keywords": ["Crops", " Agricultural", "DNA", " Bacterial", "2. Zero hunger", "Analysis of Variance", "Conservation of Natural Resources", "Bacteria", "Agriculture", "Sequence Analysis", " DNA", "04 agricultural and veterinary sciences", "15. Life on land", "DNA", " Ribosomal", "Polymerase Chain Reaction", "Solanum lycopersicum", "RNA", " Ribosomal", " 16S", "0401 agriculture", " forestry", " and fisheries", "Cloning", " Molecular", "Soil Microbiology"]}, "links": [{"href": "https://doi.org/10.1007/s00248-007-9276-4"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microbial%20Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00248-007-9276-4", "name": "item", "description": "10.1007/s00248-007-9276-4", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00248-007-9276-4"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2007-07-07T00:00:00Z"}}, {"id": "10.1007/s00248-013-0235-y", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:14:22Z", "type": "Journal Article", "created": "2013-05-01", "title": "Changes In Diversity, Abundance, And Structure Of Soil Bacterial Communities In Brazilian Savanna Under Different Land Use Systems", "description": "The Brazilian Savanna, also known as 'Cerrado', is the richest and most diverse savanna in the world and has been ranked as one of the main hotspots of biodiversity. The Cerrado is a representative biome in Central Brazil and the second largest biome in species diversity of South America. Nevertheless, large areas of native vegetation have been converted to agricultural land including grain production, livestock, and forestry. In this view, understanding how land use affects microbial communities is fundamental for the sustainable management of agricultural ecosystems. The aim of this work was to analyze and compare the soil bacterial communities from the Brazilian Cerrado associated with different land use systems using high throughput pyrosequencing of 16S rRNA genes. Relevant differences were observed in the abundance and structure of bacterial communities in soils under different land use systems. On the other hand, the diversity of bacterial communities was not relevantly changed among the sites studied. Land use systems had also an important impact on specific bacterial groups in soil, which might change the soil function and the ecological processes. Acidobacteria, Proteobacteria, and Actinobacteria were the most abundant groups in the Brazilian Cerrado. These findings suggest that more important than analyzing the general diversity is to analyze the composition of the communities. Since soil type was the same among the sites, we might assume that land use was the main factor defining the abundance and structure of bacterial communities.", "keywords": ["0301 basic medicine", "2. Zero hunger", "0303 health sciences", "03 medical and health sciences", "Bacteria", "Molecular Sequence Data", "Agriculture", "Biodiversity", "15. Life on land", "Brazil", "Ecosystem", "Phylogeny", "Soil Microbiology"]}, "links": [{"href": "https://doi.org/10.1007/s00248-013-0235-y"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microbial%20Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00248-013-0235-y", "name": "item", "description": "10.1007/s00248-013-0235-y", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00248-013-0235-y"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-04-27T00:00:00Z"}}, {"id": "10.1007/s00248-018-1305-y", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:14:22Z", "type": "Journal Article", "created": "2018-12-08", "title": "Soil Type and Cyanobacteria Species Influence the Macromolecular and Chemical Characteristics of the Polysaccharidic Matrix in Induced Biocrusts", "description": "Inoculation of soils with cyanobacteria is proposed as a sustainable biotechnological technique for restoration of degraded areas in drylands due to the important role that cyanobacteria and their exopolysaccharides (EPS) play in the environment. So far, few studies have analyzed the macromolecular and chemical characteristics of the polysaccharidic matrix in induced cyanobacterial biocrusts and the scarce existing studies have mainly focused on sandy soil textures. However, the characteristics of the cyanobacterial polysaccharidic matrix may greatly depend on soil type. The objective of this study was to examine the macromolecular distribution and monosaccharidic composition of the polysaccharidic matrix induced by inoculation of two cyanobacterial species common in arid environments, Phormidium ambiguum (non N-fixing) and Scytonema javanicum (N-fixing) in different soil types. S. javanicum promoted a higher release in the soil of the more soluble and less condensed EPS fraction (i.e., the loosely bound EPS fraction, LB-EPS), while P. ambiguum showed a higher release of the less soluble and more condensed EPS fraction (i.e., the tightly bound EPS fraction, TB-EPS). LB-EPSs were mainly composed of low MW molecules (<\u200950\u00a0kDa), while TB-EPSs were mainly composed of high MW molecules (1100-2000\u00a0kDa). The two EPS fractions showed a complex monosaccharidic composition (from 11 to 12 different types of monosaccharides), with glucose as the most abundant monosaccharide, in particular in the poorer soils characterized by lower organic C contents. In more C-rich soils, high abundances of galactose, mannose, and xylose were also found. Low abundance of uronic acids and hydrophobic monosaccharides, such as fucose and rhamnose, was found in the EPS extracted from the inoculated soils. Our results point to the influence of soil type on the macromolecular distribution and monosaccharide composition of the polysaccharidic matrix in induced biocrusts, which is likely to affect biocrust development and their role in soil structure and nutrient cycling in restored dryland soils.", "keywords": ["0301 basic medicine", "2. Zero hunger", "0303 health sciences", "Cyanobacteria inoculation", "Tightly bound EPS", "Polysaccharides", " Bacterial", "Biological soil crust; Cyanobacteria inoculation; Loosely bound EPS; Molecular weight; Monosaccharide composition; Tightly bound EPS; Ecology; Evolution; Behavior and Systematics; Ecology; Soil Science", "Biological soil crust", "Monosaccharide composition", "15. Life on land", "Cyanobacteria", "Molecular weight", "Biological soil crust; Cyanobacteria inoculation; Loosely bound EPS; Molecular weight; Monosaccharide composition; Tightly bound EPS; Ecology", " Evolution", " Behavior and Systematics; Ecology; Soil Science", "Soil", "03 medical and health sciences", "13. Climate action", "Loosely bound EPS", "Desert Climate", "Soil Microbiology"]}, "links": [{"href": "https://iris.unive.it/bitstream/10278/5089943/1/s00248-018-1305-y.pdf"}, {"href": "http://link.springer.com/content/pdf/10.1007/s00248-018-1305-y.pdf"}, {"href": "https://doi.org/10.1007/s00248-018-1305-y"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microbial%20Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00248-018-1305-y", "name": "item", "description": "10.1007/s00248-018-1305-y", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00248-018-1305-y"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-12-08T00:00:00Z"}}, {"id": "10.1007/s00253-019-09689-z", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:14:22Z", "type": "Journal Article", "created": "2019-02-20", "title": "Distribution of Oenococcus oeni populations in natural habitats", "description": "Oenococcus oeni is the lactic acid bacteria species most commonly encountered in wine, where it develops after the alcoholic fermentation and achieves the malolactic fermentation that is needed to improve the quality of most wines. O. oeni is abundant in the oenological environment as well as in apple cider and kombucha, whereas it is a minor species in the natural environment. Numerous studies have shown that there is a great diversity of strains in each wine region and in each product or type of wine. Recently, genomic studies have shed new light on the species diversity, population structure, and environmental distribution. They revealed that O. oeni has unique genomic features that have contributed to its fast evolution and adaptation to the enological environment. They have also unveiled the phylogenetic diversity and genomic properties of strains that develop in different regions or different products. This review explores the distribution of O. oeni and the diversity of strains in natural habitats.", "keywords": ["0106 biological sciences", "0301 basic medicine", "570", "Evolution", "[SPI.GPROC] Engineering Sciences [physics]/Chemical and Process Engineering", "590", "Wine", "01 natural sciences", "Domestication", "Evolution", " Molecular", "03 medical and health sciences", "[SDV.IDA]Life Sciences [q-bio]/Food engineering", "MD Multidisciplinary", "[SPI.GPROC]Engineering Sciences [physics]/Chemical and Process Engineering", "Ecosystem", "Oenococcus", "Phylogeny", "0303 health sciences", "Malolactic fermentation", "Genetic Variation", "Genomics", "[SDV.IDA] Life Sciences [q-bio]/Food engineering", "Mini-Review", "Fermentation", "Oenococcus oeni", "Biotechnology"]}, "links": [{"href": "http://link.springer.com/content/pdf/10.1007/s00253-019-09689-z.pdf"}, {"href": "https://doi.org/10.1007/s00253-019-09689-z"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Microbiology%20and%20Biotechnology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00253-019-09689-z", "name": "item", "description": "10.1007/s00253-019-09689-z", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00253-019-09689-z"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-02-20T00:00:00Z"}}, {"id": "10.1007/s00253-011-3535-5", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:14:22Z", "type": "Journal Article", "created": "2011-08-17", "title": "Methanotrophic Community Structure And Activity Under Warming And Grazing Of Alpine Meadow On The Tibetan Plateau", "description": "Knowledge about methanotrophs and their activities is important to understand the microbial mediation of the greenhouse gas CH(4) under climate change and human activities in terrestrial ecosystems. The effects of simulated warming and sheep grazing on methanotrophic abundance, community composition, and activity were studied in an alpine meadow soil on the Tibetan Plateau. There was high abundance of methanotrophs (1.2-3.4\u2009\u00d7\u200910(8) pmoA gene copies per gram of dry weight soil) assessed by real-time PCR, and warming significantly increased the abundance regardless of grazing. A total of 64 methanotrophic operational taxonomic units (OTUs) were obtained from 1,439 clone sequences, of these OTUs; 63 OTUs (98.4%) belonged to type I methanotrophs, and only one OTU was Methylocystis of type II methanotrophs. The methanotroph community composition and diversity were not apparently affected by the treatments. Warming and grazing significantly enhanced the potential CH(4) oxidation activity. There were significantly negative correlations between methanotrophic abundance and soil moisture and between methanotrophic abundance and NH(4)-N content. The study suggests that type I methanotrophs, as the dominance, may play a key role in CH(4) oxidation, and the alpine meadow has great potential to consume more CH(4) under future warmer and grazing conditions on the Tibetan Plateau.", "keywords": ["DNA", " Bacterial", "0301 basic medicine", "2. Zero hunger", "0303 health sciences", "Sheep", "Bacteria", "Molecular Sequence Data", "Temperature", "Sequence Analysis", " DNA", "15. Life on land", "Real-Time Polymerase Chain Reaction", "Tibet", "Biota", "Soil", "03 medical and health sciences", "Ammonia", "13. Climate action", "Animals", "Methane", "Oxidation-Reduction", "Soil Microbiology"]}, "links": [{"href": "https://doi.org/10.1007/s00253-011-3535-5"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Microbiology%20and%20Biotechnology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00253-011-3535-5", "name": "item", "description": "10.1007/s00253-011-3535-5", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00253-011-3535-5"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2011-08-17T00:00:00Z"}}, {"id": "10.1007/s00425-017-2647-2", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:14:30Z", "type": "Journal Article", "created": "2017-01-04", "title": "The cost of surviving nitrogen excess: energy and protein demand in the lichen Cladonia portentosa as revealed by proteomic analysis", "description": "Different nitrogen forms affect different metabolic pathways in lichens. In particular, the most relevant changes in protein expression were observed in the fungal partner, with NO 3- mostly affecting the energetic metabolism and NH 4+ affecting transport and regulation of proteins and the energetic metabolism much more than NO 3- did. Excess deposition of reactive nitrogen is a well-known agent of stress for lichens, but which symbiont is most affected and how, remains a mystery. Using proteomics can expand our understanding of stress effects on lichens. We investigated the effects of different doses and forms of reactive nitrogen, with and without supplementary phosphorus and potassium, on the proteome of the lichen Cladonia portentosa growing in a 'real-world' simulation of nitrogen deposition. Protein expression changed with the nitrogen treatments but mostly in the fungal partner, with NO3- mainly affecting the energetic metabolism and NH4+ also affecting the protein synthesis machinery. The photobiont mainly responded overexpressing proteins involved in energy production. This suggests that in response to nitrogen stress, the photobiont mainly supports the defensive mechanisms initiated by the mycobiont with an increased energy production. Such surplus energy is then used by the cell to maintain functionality in the presence of NO3-, while a futile cycle of protein production can be hypothesized to be induced by NH4+ excess. External supply of potassium and phosphorus influenced differently the responses of particular enzymes, likely reflecting the many processes in which potassium exerts a regulatory function.", "keywords": ["Chlorophyll", "Proteomics", "0301 basic medicine", "570", "mycobiont", "Lichens", "Nitrogen", "Cell Respiration", "Nitrate", "Mass Spectrometry", "Molecular mechanism", "03 medical and health sciences", "nitrate", "Ammonia", "Electrophoresis", " Gel", " Two-Dimensional", "Photosynthesis", "Ammonium", " Molecular mechanism", " Mycobiont", " Nitrate", " Photobiont", " Stress response", "Ammonium; Molecular mechanism; Mycobiont; Nitrate; Photobiont; Stress response; Genetics; Plant Science", "0303 health sciences", "Nitrates", "Stress response", "Chlorophyll A", "stress response", "Mycobiont", "ammonium", "Photobiont", "photobiont", "molecular mechanism", "Energy Metabolism", "Ammonium"]}, "links": [{"href": "http://link.springer.com/content/pdf/10.1007/s00425-017-2647-2.pdf"}, {"href": "https://doi.org/10.1007/s00425-017-2647-2"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Planta", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s00425-017-2647-2", "name": "item", "description": "10.1007/s00425-017-2647-2", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s00425-017-2647-2"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2017-01-04T00:00:00Z"}}, {"id": "10.1007/s00436-025-08483-3", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:14:30Z", "type": "Journal Article", "created": "2025-04-08", "title": "Implementation of real-time PCR assays for diagnosing intestinal protozoa infections", "description": "Abstract
Intestinal protozoa infections present a major public health challenge, particularly in areas with poor sanitation and limited access to clean water. Effective diagnostic methods are critical, yet traditional microscopy, though widely used for its simplicity, lacks the sensitivity and specificity of modern techniques like real-time Polymerase Chain Reaction (qPCR), making the latter a more effective tool for monitoring and assessing the burden of intestinal protozoa diseases. In this study, we implemented two duplex qPCR assays to detect Entamoeba dispar\uffe2\uff80\uff89+\uffe2\uff80\uff89Entamoeba histolytica and Cryptosporidium spp.\uffe2\uff80\uff89+\uffe2\uff80\uff89Chilomastix mesnili, along with singleplex assays for Giardia duodenalis and Blastocystis spp., using a 10 \uffc2\uffb5L reaction volume. This marks the first molecular detection of Chilomastix mesnili by qPCR, enhancing diagnostic precision. Using these, we analyzed stool samples from 70 patients on Pemba Island, Tanzania, before and 54 samples after treatment with 20, 25, or 30\uffc2\uffa0mg of emodepside or placebo, aiming to assess protozoa prevalence for this region and emodepside\uffe2\uff80\uff99s potential antiprotozoal effects. Our qPCR reliably detected protozoa in 74.4% of samples, with Entamoeba histolytica and Entamoeba dispar in 31.4% of cases. Notably, one-third of these infections were caused by Entamoeba histolytica. No significant reduction in protozoa was observed after emodepside treatment compared to placebo. The study highlights the utility of qPCR in providing species-level differentiation and improving the speed and cost-effectiveness of testing. The high prevalence of protozoa in this region underscores the need for continued monitoring and control efforts, though emodepside was not effective against protozoa infections. 13C", "570", "550", "Chronosequence C4/C3", "14 C", "14C", "13 C", "04 agricultural and veterinary sciences", "Molecular dynamics", "15. Life on land", "n-Alkanes", "Chronosequence C 4 /C 3", "PTMEs", "[SDU.STU.GC]Sciences of the Universe [physics]/Earth Sciences/Geochemistry", "[SDU.STU.GC] Sciences of the Universe [physics]/Earth Sciences/Geochemistry", "0401 agriculture", " forestry", " and fisheries", "14. Life underwater"]}, "links": [{"href": "https://doi.org/10.1007/s10533-013-9920-7"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Biogeochemistry", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s10533-013-9920-7", "name": "item", "description": "10.1007/s10533-013-9920-7", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s10533-013-9920-7"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2013-10-30T00:00:00Z"}}, {"id": "10.1007/s12275-012-2409-6", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:15:06Z", "type": "Journal Article", "created": "2012-11-03", "title": "Characterization Of The Bacterial And Archaeal Communities In Rice Field Soils Subjected To Long-Term Fertilization Practices", "description": "The bacterial and archaeal communities in rice field soils subjected to different fertilization regimes for 57 years were investigated in two different seasons, a non-planted, drained season (April) and a rice-growing, flooded season (August), by performing soil dehydrogenase assay, real-time PCR assay and pyrosequencing analysis. All fertilization regimes increased the soil dehydrogenase activity while the abundances of bacteria and archaea increased in the plots receiving inorganic fertilizers plus compost and not in those receiving inorganic fertilizers only. Rice-growing and flooding decreased the soil dehydrogenase activity while they increased the bacterial diversity in rice field soils. The bacterial communities were dominated by Chloroflexi, Proteobacteria, and Actinobacteria and the archaeal communities by Crenarchaeota at the phylum level. In principal coordinates analysis based on the weighted Fast UniFrac metric, the bacterial and archaeal communities were separated primarily by season, and generally distributed along with soil pH, the variation of which had been caused by long-term fertilization. Variations in the relative abundance according to the season or soil pH were observed for many bacterial and archaeal groups. In conclusion, the microbial activity, prokaryotic abundance and diversity, and prokaryotic community structure in the rice field soils were changed by season and long-term fertilization.", "keywords": ["DNA", " Bacterial", "0301 basic medicine", "2. Zero hunger", "0303 health sciences", "Bacteria", "Molecular Sequence Data", "Agriculture", "Oryza", "15. Life on land", "Archaea", "6. Clean water", "Soil", "03 medical and health sciences", "RNA", " Ribosomal", " 16S", "Seasons", "Fertilizers", "Phylogeny", "Soil Microbiology"]}, "links": [{"href": "https://doi.org/10.1007/s12275-012-2409-6"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20Microbiology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1007/s12275-012-2409-6", "name": "item", "description": "10.1007/s12275-012-2409-6", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1007/s12275-012-2409-6"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2012-10-01T00:00:00Z"}}, {"id": "10.1016/j.soilbio.2022.108918", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:16:47Z", "type": "Journal Article", "created": "2022-12-22", "title": "Litter chemistry of common European tree species drives the feeding preference and consumption rate of soil invertebrates, and shapes the diversity and structure of gut and faecal microbiomes", "description": "Open AccessTerrestrial isopods and millipedes are key drivers of a litter decomposition in terrestrial ecosystems but the effects of litter chemistry on feeding preference and litter consumption rate as well as on the diversity and composition of gut and faecal microbiome still entails several challenges. We established a mesocosm experiment with terrestrial isopods (Oniscus asellus) and millipedes (Glomeris marginata) fed by leaf litter from six common European tree species (ash, maple, lime, beech, oak and Norway spruce) to reveal the effect of litter chemistry on consumption rate and feeding preference as well as on the compositions of gut and faecal microbiomes. The total percentage of consumed litter showed that O. asellus preferred nutrient-rich and labile-C litter of ash over more recalcitrant litter of oak, beech, and Norway spruce, while G. marginata preferred calcium-rich ash, maple and lime litter over beech and Norway spruce. Consumption of litter by O. asellus and G. marginata increased with concentrations of magnesium, sulphur and potassium but decreased with concentrations of iron, phosphorus, lignin, cellulose and TOC. The millipede G. marginata harboured higher bacterial OTU richness (73.5 \u00b1 12.5) than the isopod O. asellus (49.1 \u00b1 15.9), but fungal OTU richness was similar with 25.8 \u00b1 6.7 in O. asellus and 25.7 \u00b1 2.7 in G. marginata. In total, faeces of both animals hosted higher diversity than gut. In gut and faeces of O. asellus, the fungal OTU richness was highest for individuals fed by litter of Norway spruce, while lowest OTU richness was recorded for individuals fed by litter of more palatable ash. In contrast, the highest diversity of the fungal community in gut and faeces of G. marginata was recorded for individuals fed by palatable lime litter, while the lowest OTUs richness was recorded when millipedes were fed by maple and spruce. The structures of bacterial and fungal communities generally separated between O. asellus and G. marginata. The fungal community structure in gut and faeces differed between animals fed by different foliar litters, while the bacterial community structure mainly differed between gut and faeces regardless of the offered type of litter. The fungal community structure in gut and faeces of O. asellus and G. marginata were shaped by concentrations of magnesium, sulphur, lignin and cellulose. The bacterial communities in gut and faeces of both O. asellus and G. marginata were dominated by copiotrophic bacteria, while fungal communities were dominated by unspecified saprotrophs. Our study suggest that litter quality is a strong driver of feeding preference and consumption rates as well as composition of bacterial and fungal communities in gut and faeces of two species representing the main groups of litter feeding soil fauna in European forests.", "keywords": ["0301 basic medicine", "Genomic Insights into Social Insects and Symbiosis", "Plant Science", "Plant litter", "Agricultural and Biological Sciences", "03 medical and health sciences", "Biochemistry", " Genetics and Molecular Biology", "Litter", "Genetics", "Ecological Niche", "Biology", "Ecosystem", "Beech", "0303 health sciences", "Species Distribution Modeling and Climate Change Impacts", "Ecology", "Ecological Modeling", "Botany", "Life Sciences", "15. Life on land", "Plant-Parasitic Nematodes in Molecular Plant Pathology", "Detritus", "FOS: Biological sciences", "Detritivore", "Environmental Science", "Physical Sciences", "Species richness"]}, "links": [{"href": "https://doi.org/10.1016/j.soilbio.2022.108918"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Soil%20Biology%20and%20Biochemistry", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.soilbio.2022.108918", "name": "item", "description": "10.1016/j.soilbio.2022.108918", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.soilbio.2022.108918"}, {"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": "10.1016/j.apsoil.2024.105383", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:15:31Z", "type": "Journal Article", "created": "2024-03-23", "title": "Long-term restoration with organic amendments is clearer evidenced by soil organic matter composition than by changes in microbial taxonomy and functionality", "description": "Open AccessPeer reviewed", "keywords": ["2. Zero hunger", "Organic residues", "Circular economy", "SOM molecular composition", "13. Climate action", "11. Sustainability", "Soil recovery", "Climate change", "Microbiome", "15. Life on land", "6. Clean water", "12. Responsible consumption"]}, "links": [{"href": "https://doi.org/10.1016/j.apsoil.2024.105383"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Applied%20Soil%20Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.apsoil.2024.105383", "name": "item", "description": "10.1016/j.apsoil.2024.105383", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.apsoil.2024.105383"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-06-01T00:00:00Z"}}, {"id": "10.1016/j.bios.2020.112231", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:15:35Z", "type": "Journal Article", "created": "2020-04-23", "title": "Active N dopant states of electrodes regulate extracellular electron transfer of Shewanella oneidensis MR-1 for bioelectricity generation: Experimental and theoretical investigations", "description": "Anodic N doping is an effective way to improve power generation of bioelectrochemical systems (BESs), but the role of various active N dopant states of the anode on BES performance is still unclear. Herein, the effect of anodic active N dopant states on bioelectricity generation of Shewanella oneidensis MR-1 inoculated BESs particularly including microbial extracellular electron transfer (EET) was explored using experiments and theoretical simulations. It was found a positive linear correlation between the peak current density of BESs and pyrrolic N content of the anode, which would mainly ascribe to the enhancement of both direct electron transfer (DET) and mediated electron transfer (MET) of S. oneidensis MR-1. Morever, the molecule dynamic simulation revealed that such EET improvements of S. oneidensis MR-1 could be due to more remarkable reduction in the thermodynamic and kinetic resistances of the DET and MET processes with anodic doping of pyrrolic N compared to pyridinic N and graphitic N. This work provides a valuable guideline to design of high-performance anodes for potential BES applications.", "keywords": ["Electron Transport", "Shewanella", "Electricity", "Bioelectric Energy Sources", "Electrons", "Pyrroles", "02 engineering and technology", "Molecular Dynamics Simulation", "0210 nano-technology", "Electrodes", "01 natural sciences", "0104 chemical sciences"], "contacts": [{"organization": "Wang, Yi-Xuan, Li, Wen-Qiang, He, Chuan-Shu, Zhao, Han-Qing, Han, Jun-Cheng, Liu, Xiao-Cheng, Mu, Yang,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1016/j.bios.2020.112231"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Biosensors%20and%20Bioelectronics", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.bios.2020.112231", "name": "item", "description": "10.1016/j.bios.2020.112231", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.bios.2020.112231"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-07-01T00:00:00Z"}}, {"id": "10.1016/j.cell.2021.04.024", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:15:39Z", "type": "Journal Article", "created": "2021-05-18", "title": "Innovation, conservation, and repurposing of gene function in root cell type development", "description": "Plant species have evolved myriads of solutions, including complex cell type development and regulation, to adapt to dynamic environments. To understand this cellular diversity, we profiled tomato root cell type translatomes. Using xylem differentiation in tomato, examples of functional innovation, repurposing, and conservation of transcription factors are described, relative to the model plant Arabidopsis. Repurposing and innovation of genes are further observed within an exodermis regulatory network and illustrate its function. Comparative translatome analyses of rice, tomato, and Arabidopsis cell populations suggest increased expression conservation of root meristems compared with other homologous populations. In addition, the functions of constitutively expressed genes are more conserved than those of cell type/tissue-enriched genes. These observations suggest that higher order properties of cell type and pan-cell type regulation are evolutionarily conserved between plants and animals.", "keywords": ["root development", "translatomes", "General Biochemistry", "Genetics and Molecular Biology", "Green Fluorescent Proteins", "Meristem", "Arabidopsis", "cell types; evolution; exodermis; gene regulation; rice; root development; tomato; translatomes; xylem", "tomato", "xylem", "Genes", " Plant", "Plant Roots", "Inventions", "Solanum lycopersicum", "Species Specificity", "Gene Expression Regulation", " Plant", "Xylem", "evolution", "Gene Regulatory Networks", "Promoter Regions", " Genetic", "Plant Proteins", "2. Zero hunger", "exodermis", "rice", "15. Life on land", "Protein Biosynthesis", "cell types", "gene regulation", "Transcription Factors"]}, "links": [{"href": "https://www.research.unipd.it/bitstream/11577/3392826/2/PIIS0092867421005043.pdf"}, {"href": "https://doi.org/10.1016/j.cell.2021.04.024"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Cell", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.cell.2021.04.024", "name": "item", "description": "10.1016/j.cell.2021.04.024", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.cell.2021.04.024"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-06-01T00:00:00Z"}}, {"id": "10.1016/j.chemosphere.2014.06.094", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:15:40Z", "type": "Journal Article", "created": "2014-08-13", "title": "Influence of tetracycline on the microbial community composition and activity of nitrifying biofilms", "description": "The present work aims to evaluate the bacterial composition and activity (carbon and nitrogen removal) of nitrifying biofilms exposed to 50 \u03bcg L(-1) of tetracycline. The tetracycline removal efficiency and the occurrence of tetracycline resistance (tet) genes were also studied. Two sequencing batch biofilm reactors (SBBRs) fed with synthetic wastewater were operated without (SBBR1) and with (SBBR2) the antibiotic. Both SBBRs showed similar organic matter biodegradation and nitrification activity. Tetracycline removal was about 28% and biodegradation was probably the principal removal mechanism of the antibiotic. Polymerase chain reaction-denaturing gradient gel electrophoresis analysis of the bacterial community showed shifts leading to not only the fading of some ribotypes, but also the emergence of new ones in the biofilm with tetracycline. The study of the tet genes showed that tet(S) was only detected in the biofilm with tetracycline, suggesting a relationship between its occurrence and the presence of the antibiotic.", "keywords": ["Science & Technology", "Polymers", "Microbiota", "Molecular Sequence Data", "Tetracycline Resistance", "0211 other engineering and technologies", "Resistance genes", "Sequence Analysis", " DNA", "02 engineering and technology", "Tetracycline", "Nitrification", "01 natural sciences", "6. Clean water", "Anti-Bacterial Agents", "Tetracycline removal", "Nitrifying biofilms", "Bacterial Proteins", "Antibiotics", "Biofilms", "11. Sustainability", "Bacterial community", "Adsorption", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1016/j.chemosphere.2014.06.094"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Chemosphere", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.chemosphere.2014.06.094", "name": "item", "description": "10.1016/j.chemosphere.2014.06.094", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.chemosphere.2014.06.094"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2014-12-01T00:00:00Z"}}, {"id": "10.1016/j.coisb.2021.100379", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:15:40Z", "type": "Journal Article", "created": "2021-09-09", "title": "Approaches for completing metabolic networks through metabolite damage and repair discovery", "description": "Metabolites are prone to damage, either via enzymatic side reactions, which collectively form the underground metabolism, or via spontaneous chemical reactions. The resulting non-canonical metabolites that can be toxic, are mended by dedicated 'metabolite repair enzymes.' Deficiencies in the latter can cause severe disease in humans, whereas inclusion of repair enzymes in metabolically engineered systems can improve the production yield of value-added chemicals. The metabolite damage and repair loops are typically not yet included in metabolic reconstructions and it is likely that many remain to be discovered. Here, we review strategies and associated challenges for unveiling non-canonical metabolites and metabolite repair enzymes, including systematic approaches based on high-resolution mass spectrometry, metabolome-wide side-activity prediction, as well as high-throughput substrate and phenotypic screens.", "keywords": ["0301 basic medicine", "0303 health sciences", "03 medical and health sciences", ": Biochemistry", " biophysics & molecular biology [F05] [Life sciences]", ": Biochimie", " biophysique & biologie mol\u00e9culaire [F05] [Sciences du vivant]", "Article"]}, "links": [{"href": "https://doi.org/10.1016/j.coisb.2021.100379"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Current%20Opinion%20in%20Systems%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.coisb.2021.100379", "name": "item", "description": "10.1016/j.coisb.2021.100379", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.coisb.2021.100379"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-12-01T00:00:00Z"}}, {"id": "10.1016/j.envpol.2022.120834", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:15:53Z", "type": "Journal Article", "created": "2022-12-06", "title": "Nanomaterials biotransformation: In planta mechanisms of action", "description": "Research on engineered nanomaterials (ENMs) exposure has continued to expand rapidly, with a focus on uncovering the underlying mechanisms. The EU largely limits the number and the type of organisms that can be used for experimental testing through the 3R normative. There are different routes through which ENMs can enter the soil-plant system: this includes the agricultural application of sewage sludges, and the distribution of nano-enabled agrochemicals. However, a thorough understanding of the physiological and molecular implications of ENMs dispersion and chronic low-dose exposure remains elusive, thus requiring new evidence and a more mechanistic overview of pathways and major effectors involved in plants. Plants can offer a reliable alternative to conventional model systems to elucidate the concept of ENM biotransformation within tissues and organs, as a crucial step in understanding the mechanisms of ENM-organism interaction. To facilitate the understanding of the physico-chemical forms involved in plant response, synchrotron-based techniques have added new potential perspectives in studying the interactions between ENMs and biota. These techniques are providing new insights on the interactions between ENMs and biomolecules. The present review discusses the principal outcomes for ENMs after intake by plants, including possible routes of biotransformation which make their final fate less uncertain, and therefore require further investigation.", "keywords": ["580", "2. Zero hunger", "0301 basic medicine", "570", "plant", "molecular response", "Plants", "01 natural sciences", "Nanostructures", "synchrotron based analyses", "03 medical and health sciences", "13. Climate action", "biotransformation", "Settore BIOS-10/A - Biologia cellulare e applicata", "synchrotron-based analyses", "nanomaterials", "Biotransformation", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1016/j.envpol.2022.120834"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Pollution", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.envpol.2022.120834", "name": "item", "description": "10.1016/j.envpol.2022.120834", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.envpol.2022.120834"}, {"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": "10.1016/j.envres.2024.118880", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:15:53Z", "type": "Journal Article", "created": "2024-04-04", "title": "Unveiling the capacity of bioaugmentation application, in comparison with biochar and rhamnolipid for TPHs degradation in aged hydrocarbons polluted soil", "description": "Persistent, aged hydrocarbons in soil hinder remediation, posing a significant environmental threat. While bioremediation offers an environmentally friendly and cost-effective approach, its efficacy for complex contaminants relies on enhancing pollutant bioavailability. This study explores the potential of immobilized bacterial consortia combined with biochar and rhamnolipids to accelerate bioremediation of aged total petroleum hydrocarbon (TPH)-contaminated soil. Previous research indicates that biochar and biosurfactants can increase bioremediation rates, while mixed consortia offer sequential degradation and higher hydrocarbon mineralization. The present investigation aimed to assess whether combining these strategies could further enhance degradation in aged, complex soil matrices. The bioaugmentation (BA) with bacterial consortium increased the TPHs degradation in aged soil (over 20% compared to natural attenuation - NA). However, co-application of BA with biochar and rhamnolipid higher did not show a statistically prominent synergistic effect. While biochar application facilitated the maintenance of hydrocarbon degrading bacterial consortium in soil, the present study did not identify a direct influence in TPHs degradation. The biochar application in contaminated soil contributed to TPHs adsorption. Rhamnolipid alone slightly increased the TPHs biodegradation with NA, while the combined bioaugmentation treatment with rhamnolipid and biochar increased the degradation between 27.5 and 29.8%. These findings encourage further exploration of combining bioaugmentation with amendment, like biochar and rhamnolipid, for remediating diverse environmental matrices contaminated with complex and aged hydrocarbons.", "keywords": ["Qu\u00edmica agr\u00edcola", "Bioqu\u00edmica", "Biolog\u00eda molecular", "Rhamnolipids", "Molecular biology", "Chemistry", " Inorganic", "Biochemistry", "Qu\u00edmica inorg\u00e1nica", "Hydrocarbons", "Inorganic", "Chemistry", "Biochar", "Soil", "Bioaugmentation", "Agricultural chemistry", "Biodegradation", " Environmental", "Petroleum", "Recalcitrant hydrocarbons", "Charcoal", "Biodegradation", "Soil Pollutants", "TPHs polluted soils", "Glycolipids", "Soil Microbiology"]}, "links": [{"href": "https://doi.org/10.1016/j.envres.2024.118880"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Research", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.envres.2024.118880", "name": "item", "description": "10.1016/j.envres.2024.118880", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.envres.2024.118880"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-01-01T00:00:00Z"}}, {"id": "10.1016/j.ijbiomac.2018.12.270", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:16:13Z", "type": "Journal Article", "created": "2019-01-03", "title": "Improving polyhydroxyalkanoates production in phototrophic mixed cultures by optimizing accumulator reactor operating conditions", "description": "Open AccessPolyhydroxyalkanoates (PHAs) production with phototrophic mixed cultures (PMCs) has been recently proposed. These cultures can be selected under the permanent presence of carbon and the PHA production can be enhanced in subsequent accumulation steps. To optimize the PHA production in accumulator reactors, this work evaluated the impact of 1) initial acetate concentration, 2) light intensity, 3) removal of residual nitrogen on the culture performance. Results indicate that low acetate concentration (<30CmM) and specific light intensities around 20W/gX are optimal operating conditions that lead to high polyhydroxybutyrate (PHB) storage yields (0.83+-0.07 Cmol-PHB/Cmol-Acet) and specific PHB production rates of 2.21+-0.07 Cmol-PHB/Cmol X d. This rate is three times higher than previously registered in non-optimized accumulation tests and enabled a PHA content increase from 15 to 30% in less than 4h. Also, it was shown for the first time, the capability of a PMC to use a real waste, fermented cheese whey, to produce PHA with a hydroxyvalerate (HV) content of 12%. These results confirm that fermented wastes can be used as substrates for PHA production with PMCs and that the energy levels in sunlight that lead to specific light intensities from 10 to 20W/gX are sufficient to drive phototrophic PHA production processes.", "keywords": ["0106 biological sciences", "1303 Biochemistry", "Light", "Nitrogen", "Polyhydroxyalkanoates (PHA)", "Fermented cheese whey (FCW)", "Phototrophic mixed cultures (PMCs)", "Acetates", "7. Clean energy", "01 natural sciences", "1315 Structural Biology", "Bioreactors", "Cheese", "Whey", "1312 Molecular Biology", "0105 earth and related environmental sciences", "Polyhydroxyalkanoates", "Volatile fatty acids (VFAs)", "Other Quantitative Biology (q-bio.OT)", "Quantitative Biology - Other Quantitative Biology", "Purple phototrophic bacteria (PPB)", "Kinetics", "Phototrophic Processes", "13. Climate action", "FOS: Biological sciences", "Fermentation"]}, "links": [{"href": "https://doi.org/10.1016/j.ijbiomac.2018.12.270"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/International%20Journal%20of%20Biological%20Macromolecules", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.ijbiomac.2018.12.270", "name": "item", "description": "10.1016/j.ijbiomac.2018.12.270", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.ijbiomac.2018.12.270"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-04-01T00:00:00Z"}}, {"id": "10.1016/j.ijbiomac.2019.07.007", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:16:13Z", "type": "Journal Article", "created": "2019-07-02", "title": "Effect of drying temperature on structural and thermomechanical properties of konjac glucomannan-zein blend films", "description": "Konjac glucomannan (KGM)/zein blend films were successfully prepared by solution casting at different drying temperatures (40, 50, 60, 70 and 80\u00b0C). The effects of drying temperature on the films' structural, thermomechanical, mechanical and water barrier properties were investigated. Microstructural observations indicated that zein particles were homogeneously dispersed in KGM continuous matrix, and the blend film dried at 60\u00b0C showed the most compact and smooth surface. Dynamic mechanical thermal analysis curves showed that with increasing drying temperature from 40 to 60\u00b0C, glass transition temperature (Tg) of films increased; however, with further increase in temperature, the Tg decreased, indicating the compatibility of film components was the highest when dried at 60\u00b0C. The hydrophobicity of blend film dried at 60\u00b0C was significantly stronger than that of other blend films, supported by the highest water contact angle, and the lowest swelling ratio and solubility. Moreover, the film dried at 60\u00b0C showed the highest tensile strength, elongation at break, and the lowest water vapor permeability. Therefore 60\u00b0C was preferred for KGM/zein blend film preparation. This study indicated that intermolecular interactions among film components were greatly influenced by the drying temperature, and should be carefully noticed for film preparation.", "keywords": ["Zein", "Temperature", "General Medicine", "04 agricultural and veterinary sciences", "Biochemistry", "Permeability", "Mannans", "Steam", "0404 agricultural biotechnology", "Solubility", "Structural Biology", "Desiccation", "0405 other agricultural sciences", "Molecular Biology", "Hydrophobic and Hydrophilic Interactions", "Mechanical Phenomena"]}, "links": [{"href": "https://doi.org/10.1016/j.ijbiomac.2019.07.007"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/International%20Journal%20of%20Biological%20Macromolecules", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.ijbiomac.2019.07.007", "name": "item", "description": "10.1016/j.ijbiomac.2019.07.007", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.ijbiomac.2019.07.007"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-10-01T00:00:00Z"}}, {"id": "10.1016/j.ijbiomac.2025.141425", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-04-16T16:16:13Z", "type": "Journal Article", "created": "2025-02-24", "title": "Perfluoroalkyl acids interact with major human blood protein fibrinogen: Experimental and computation study", "description": "PFAS (per- and polyfluorinated alkyl substances) are synthetic compounds prized for their stability across various industries, but they pose an increasing threat to the environment and human health. Following the regulation of long-chain PFAS, short-chain and ultra-short-chain molecules have been introduced as substitutes, yet their bioaccumulation potential remains poorly understood. In this study, we combined experimental (intrinsic fluorescence, microscale thermophoresis, clotting assays) and computational approaches to investigate how trifluoroacetic acid, perfluorobutanoic acid, and perfluorooctanoic acid bind to fibrinogen, a key human blood protein. All tested perfluoroalkyl acids (PFAAs) exhibited moderate binding affinity (Kd in the 10-4-10-5\u202fM range), yet circular dichroism and fibrin clot formation assays revealed no functional impairment of fibrinogen. Molecular docking indicated distinct, chain-length-specific binding sites, suggesting multiple routes for PFAAs to interact with fibrinogen without disrupting its primary biological role. These findings challenge the assumption that short-chain PFAS are less bioaccumulative and underscore the need for further research into their long-term health impacts, particularly given their widespread presence in the environment and potential accumulation in human blood.", "keywords": ["Human fibrinogen", "PFAS", "Molecular docking"]}, "links": [{"href": "https://doi.org/10.1016/j.ijbiomac.2025.141425"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/International%20Journal%20of%20Biological%20Macromolecules", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.ijbiomac.2025.141425", "name": "item", "description": "10.1016/j.ijbiomac.2025.141425", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.ijbiomac.2025.141425"}, {"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": "10.1016/j.ijbiomac.2019.02.019", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-04-16T16:16:13Z", "type": "Journal Article", "created": "2019-02-09", "title": "Influence of crosslinker amount on the microstructure and properties of starch-based superabsorbent polymers by one-step preparation at high starch concentration", "description": "This work concerns how crosslinker amount (N, N'-methylene-bisacrylamide) affects the microstructural, absorbent and rheological features of one-step prepared starch-based superabsorbent polymers at a high starch concentration (0.27:1 w/w starch-water). The increased crosslinker amount evidently altered the microstructure and the absorbent and rheological features. Then, the variations in starch-based superabsorbent polymer properties were discussed from a microstructure viewpoint. Particularly, the higher crosslinker quantity rose the crosslinking density and the ratio (GR) of grafted anhydroglucose unit on starch backbone (from 27% to 52%), but short the average polyacrylamide (PAM) chain length (LPAM). These structural features suppressed the chain stretch within starch-based superabsorbent polymer fractal gels (confirmed by smaller Rg value) and promoted the formation of smaller chain networks, thus weakening the water absorption to the starch-based superabsorbent polymer chain networks. Also, the increased GR and reduced LPAM, with lowered chain extension and elevated crosslinking density, probably decreased the flexibility and mobility of chain segments in starch-based superabsorbent polymer gel matrixes. This caused the enhanced robustness and storage modulus of the gels with reduced chain energy dissipation ability.", "keywords": ["Acrylamides", "Water", "Starch", "General Medicine", "Cerium", "02 engineering and technology", "Biochemistry", "01 natural sciences", "0104 chemical sciences", "Absorption", " Physicochemical", "Structural Biology", "Rheology", "0210 nano-technology", "Molecular Biology"]}, "links": [{"href": "https://doi.org/10.1016/j.ijbiomac.2019.02.019"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/International%20Journal%20of%20Biological%20Macromolecules", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.ijbiomac.2019.02.019", "name": "item", "description": "10.1016/j.ijbiomac.2019.02.019", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.ijbiomac.2019.02.019"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2019-05-01T00:00:00Z"}}, {"id": "10.1016/j.ijbiomac.2021.10.032", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:16:13Z", "type": "Journal Article", "created": "2021-10-14", "title": "Identification and molecular characterization of the high-affinity copper transporters family in Solanum lycopersicum.", "description": "Copper (Cu) plays a key role as cofactor in the plant proteins participating in essential cellular processes, such as electron transport and free radical scavenging. Despite high-affinity Cu transporters (COPTs) being key participants in Cu homeostasis maintenance, very little is known about COPTs in tomato (Solanum lycopersicum) even though it is the most consumed fruit worldwide and this crop is susceptible to suboptimal Cu conditions. In this study, a six-member family of COPT (SlCOPT1-6) was identified and characterized. SlCOPTs have a conserved architecture consisting of three transmembrane domains and \u03b2-strains. However, the presence of essential methionine residues, a methionine-enriched amino-terminal region, an Mx3Mx12Gx3G Cu-binding motif and a cysteine rich carboxy-terminal region, all required for their functionality, is more variable among members. Accordingly, functional complementation assays in yeast indicate that SlCOPT1 and SlCOPT2 are able to transport Cu inside the cell, while SlCOPT3 and SlCOPT5 are only partially functional. In addition, protein interaction network analyses reveal the connection between SlCOPTs and Cu PIB-type ATPases, other metal transporters, and proteins related to the peroxisome. Gene expression analyses uncover organ-dependency, fruit vasculature tissue specialization and ripening-dependent gene expression profiles, as well as different response to Cu deficiency or toxicity in an organ-dependent manner.", "keywords": ["0301 basic medicine", "2. Zero hunger", "0303 health sciences", "Biotecnologia agr\u00edcola", "Molecular Conformation", "COPT", "Gene Expression", "Tomato", "Structure-Activity Relationship", "03 medical and health sciences", "Copper Transport Proteins", "Solanum lycopersicum", "Multigene Family", "Tom\u00e0quets", "Amino Acid Sequence", "Heavy metal stress", "Conserved Sequence", "Copper", "Phylogeny", "Plant Proteins"]}, "links": [{"href": "https://doi.org/10.1016/j.ijbiomac.2021.10.032"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/International%20Journal%20of%20Biological%20Macromolecules", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.ijbiomac.2021.10.032", "name": "item", "description": "10.1016/j.ijbiomac.2021.10.032", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.ijbiomac.2021.10.032"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-12-01T00:00:00Z"}}, {"id": "10.1016/j.jafr.2023.100732", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:16:15Z", "type": "Journal Article", "created": "2023-08-07", "title": "Aeromycological studies in the crops of the main cereals: A systematic review", "description": "Open AccessLes \u00e9tudes a\u00e9romycologiques sur les cultures c\u00e9r\u00e9ali\u00e8res permettent de d\u00e9terminer la variation temporelle des agents pathog\u00e8nes des plantes affectant la culture et de d\u00e9terminer le moment appropri\u00e9 pour appliquer les fongicides. Cependant, ce sujet n'a pas \u00e9t\u00e9 syst\u00e9matiquement revu. L'objectif de ce travail \u00e9tait d'analyser syst\u00e9matiquement toutes les \u00e9tudes a\u00e9romycologiques r\u00e9alis\u00e9es sur le ma\u00efs, le bl\u00e9, le riz, l'avoine, l'orge, le seigle, le sorgho et le millet. Une recherche syst\u00e9matique a \u00e9t\u00e9 effectu\u00e9e dans Scopus depuis le d\u00e9but de la base de donn\u00e9es jusqu'au 1er ao\u00fbt 2022. Les crit\u00e8res d'inclusion \u00e9taient qu'il s'agissait d'\u00e9tudes a\u00e9romycologiques sur le bl\u00e9 ou le riz ou le ma\u00efs ou l'avoine ou le sorgho ou le seigle ou l'orge ou le millet et d'\u00e9tudes publi\u00e9es dans des revues \u00e0 comit\u00e9 de lecture index\u00e9es dans Journal Citation Reports et r\u00e9dig\u00e9es en anglais ou en espagnol. Quarante-trois \u00e9tudes (21 sur le bl\u00e9, 15 sur le riz, 5 sur le ma\u00efs, 1 sur le sorgho et 2 sur l'orge) r\u00e9pondant \u00e0 tous les crit\u00e8res d'\u00e9ligibilit\u00e9 ont \u00e9t\u00e9 incluses (une des \u00e9tudes sur le ma\u00efs a \u00e9galement \u00e9t\u00e9 men\u00e9e sur le bl\u00e9). Aucune \u00e9tude a\u00e9romycologique n'a \u00e9t\u00e9 trouv\u00e9e chez l'avoine, le seigle et le millet. Il a \u00e9t\u00e9 not\u00e9 que la plupart des recherches a\u00e9romycologiques ont \u00e9t\u00e9 men\u00e9es sur les cultures de bl\u00e9 et principalement dans les pays des Am\u00e9riques. De plus, les propagules fongiques sont principalement collect\u00e9es par des m\u00e9thodes non viables, en utilisant divers types de collecteurs. En g\u00e9n\u00e9ral, les \u00e9tudes visaient \u00e0 identifier un agent pathog\u00e8ne sp\u00e9cifique et non \u00e0 la diversit\u00e9 des agents pathog\u00e8nes qui peuvent \u00eatre trouv\u00e9s. La relation des champignons identifi\u00e9s avec les param\u00e8tres m\u00e9t\u00e9orologiques \u00e9tait variable dans les diff\u00e9rentes \u00e9tudes. Cette revue syst\u00e9matique permet de r\u00e9sumer les \u00e9tudes a\u00e9romycologiques qui ont \u00e9t\u00e9 men\u00e9es sur les cultures de bl\u00e9, de riz, de ma\u00efs, de sorgho et d'orge. Il sugg\u00e8re \u00e9galement o\u00f9 les futures \u00e9tudes dans ce domaine devraient \u00eatre dirig\u00e9es, en fonction des limites rencontr\u00e9es.", "keywords": ["Impacts of Elevated CO2 and Ozone on Plant Physiology", "Agriculture (General)", "Health", " Toxicology and Mutagenesis", "Plant Science", "Crop", "S1-972", "Agricultural and Biological Sciences", "Barley", "Biochemistry", " Genetics and Molecular Biology", "TX341-641", "10. No inequality", "Biology", "Sorghum", "2. Zero hunger", "Corn", "Airborne spores", "Nutrition. Foods and food supply", "Life Sciences", "Phylogenetic Analysis", "Cell Biology", "15. Life on land", "2414.06 Hongos", "Agronomy", "3. Good health", "Wheat", "Environmental Science", "Physical Sciences", "Rice", "Indoor Air Quality and Health Effects", "Diversity and Evolution of Fungal Pathogens", "Biotechnology"]}, "links": [{"href": "https://doi.org/10.1016/j.jafr.2023.100732"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20Agriculture%20and%20Food%20Research", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.jafr.2023.100732", "name": "item", "description": "10.1016/j.jafr.2023.100732", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.jafr.2023.100732"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2023-12-01T00:00:00Z"}}, {"id": "10.1016/j.nbt.2019.10.010", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:16:24Z", "type": "Journal Article", "created": "2019-11-12", "title": "Advances in combined enzymatic extraction of ferulic acid from wheat bran", "description": "Wheat bran could be utilised as feedstock for innovative and sustainable biorefinery processes. Here, an enzymatic hydrolysis process for ferulic acid (FA) extraction was optimised step by step for total wheat bran (Tritello) and then also applied to the outer bran layer (Bran 1). Proteins, reducing sugars, total phenols and FA were quantified. The highest FA yields (0.82-1.05\u202fg/kg bran) were obtained either by rehydrating the bran by autoclaving (Tritello) or by steam explosion (Bran 1) using a bran/water ratio of 1:20, followed by enzymatic pre-treatment with Alcalase and Termamyl, to remove protein and sugars, and a final enzymatic hydrolysis with Pentopan and feruloyl esterase to solubilise phenol. FA was recovered from the final digestate via solid phase extraction. A 40-fold scale-up was also performed and the release of compounds along all the process steps and at increasing incubation times was monitored. Results showed that FA was initially present at a minimum level while it was specifically released during the enzymatic treatment. In the final optimized process, the FA extraction yield was higher than that obtained with NaOH control hydrolysis while, in comparison with other FA enzymatic extraction methods, fewer process steps were required and no buffers, strong acid/alkali nor toxic compounds were used. Furthermore, the proposed process may be easily scaled-up, confirming the feasibility of wheat bran valorisation by biorefinery processes to obtain valuable compounds having several areas of potential industrial exploitation.", "keywords": ["Dietary Fiber", "0106 biological sciences", "0301 basic medicine", "Coumaric Acids", "Bioengineering", "Wheat bran", "01 natural sciences", "Bio-based Industries Innovation action - Demonstration", "Enzymatic extraction", "03 medical and health sciences", "Subtilisins", "European Commission", "Molecular Biology", "Knowmad Institut", "2. Zero hunger", "EC", "Hydrolysis", "H2020", "Polyphenols", "General Medicine", "Ferulic acid", "Biorefinery", "Biorefinery; Enzymatic extraction; Ferulic acid; Polyphenols; Steam explosion; Wheat bran", "Steam explosion", "alpha-Amylases", "Biotechnology"]}, "links": [{"href": "https://cris.unibo.it/bitstream/11585/706995/1/Ferri%20et%20al%202020%20New%20Biotech.pdf"}, {"href": "https://doi.org/10.1016/j.nbt.2019.10.010"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/New%20Biotechnology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.nbt.2019.10.010", "name": "item", "description": "10.1016/j.nbt.2019.10.010", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.nbt.2019.10.010"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-05-01T00:00:00Z"}}, {"id": "10.1016/j.nbt.2023.12.003", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:16:24Z", "type": "Journal Article", "created": "2023-12-19", "title": "Phytostabilization of metal(loid)s by ten emergent macrophytes following a 90-day exposure to industrially contaminated groundwater", "description": "Better understanding of macrophyte tolerance under long exposure times in real environmental matrices is crucial for phytoremediation and phytoattenuation strategies for aquatic systems. The metal(loid) attenuation ability of 10 emergent macrophyte species (Carex riparia, Cyperus longus, Cyperus rotundus, Iris pseudacorus, Juncus effusus, Lythrum salicaria, Menta aquatica, Phragmites australis, Scirpus holoschoenus, and Typha angustifolia) was investigated using real groundwater from an industrial site, over a 90-day exposure period. A 'phytobial' treatment was included, with 3 plant growth-promoting rhizobacterial strains. Plants exposed to the polluted water generally showed similar or reduced aerial biomass compared to the controls, except for C. riparia. This species, along with M. aquatica, exhibited improved biomass after bioaugmentation. Phytoremediation mechanisms accounted for more than 60% of As, Cd, Cu, Ni, and Pb removal, whilst abiotic mechanisms contributed to \u223c80% removal of Fe and Zn. Concentrations of metal(loid)s in the roots were generally between 10-100 times higher than in the aerial parts. The macrophytes in this work can be considered 'underground attenuators', more appropriate for rhizostabilization strategies, especially L. salicaria, M. aquatica, S. holoschoenus, and T. angustifolia. For I. pseudacorus, C. longus, and C. riparia; harvesting the aerial parts could be a complementary phytoextraction approach to further remove Pb and Zn. Of all the plants, S. holoschoenus showed the best balance between biomass production and uptake of multiple metal(loid)s. Results also suggest that multiple phytostrategies may be possible for the same plant depending on the final remedial aim. Phytobial approaches need to be further assessed for each macrophyte species.", "keywords": ["Rhizostabilization", "Metalloid", "Biotecnolog\u00eda", "Biolog\u00eda molecular", "Emergent macrophyte", "Metal", "Molecular biology", "Plants", "15. Life on land", "Poaceae", "6. Clean water", "Biodegradation", " Environmental", "Lead", "13. Climate action", "Metals", " Heavy", "Plant growth promoting bacteria", "Biomass", "Groundwater", "Biotechnology"]}, "links": [{"href": "https://doi.org/10.1016/j.nbt.2023.12.003"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/New%20Biotechnology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.nbt.2023.12.003", "name": "item", "description": "10.1016/j.nbt.2023.12.003", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.nbt.2023.12.003"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-03-01T00:00:00Z"}}, {"id": "10.1016/j.pbi.2021.102120", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:16:25Z", "type": "Journal Article", "created": "2021-11-30", "title": "Fighting salt or enemies: shared perception and signaling strategies", "description": "Plants react to a myriad of biotic and abiotic environmental signals through specific cellular mechanisms required for survival under stress. Although pathogen perception has been widely studied and characterized, salt stress perception and signaling remain largely elusive. Recent observations, obtained in the model plant Arabidopsis thaliana, show that perception of specific features of pathogens also allows plants to mount salt stress resilience pathways, highlighting the possibility that salt sensing and pathogen perception mechanisms partially overlap. We discuss these overlapping strategies and examine the emerging role of A.\u00a0thaliana cell wall and plasma membrane components in activating both salt- and pathogen-induced responses, as part of exquisite mechanisms underlying perception of damage and danger. This knowledge helps understanding the complexity of plant responses to pathogens and salinity, leading to new hypotheses that could explain why plants evolved similar strategies to respond to these, at first sight, very different types of stimuli.", "keywords": ["0301 basic medicine", "Salinity", "0303 health sciences", "Pathogen elicitors", "Arabidopsis Proteins", "Arabidopsis", "Plants", "15. Life on land", "Salt Stress", "03 medical and health sciences", "Cell wall sensing", "Plant immune responses", "Damage-associated molecular patterns (DAMPs)", "Gene Expression Regulation", " Plant", "Stress", " Physiological", "Perception", "Danger signals"]}, "links": [{"href": "https://doi.org/10.1016/j.pbi.2021.102120"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Current%20Opinion%20in%20Plant%20Biology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.pbi.2021.102120", "name": "item", "description": "10.1016/j.pbi.2021.102120", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.pbi.2021.102120"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-12-01T00:00:00Z"}}, {"id": "10.1017/rdc.2018.62", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-16T16:17:02Z", "type": "Journal Article", "created": "2018-07-19", "title": "Molecular Fingerprinting of14C Dated Soil Organic Matter Fractions from Archaeological Settings in NW Spain", "description": "Abstract
This paper evaluates the complexities of radiocarbon (14C) dates from soil organic matter (SOM) in archaeological scenarios. The aqueous NaOH-insoluble residual SOM from Neolithic to medieval sites in NW Spain produced consistently older calibrated14C ages than NaOH-extractable SOM. Using pyrolysis-gas chromatography-mass spectrometry (Py-GC-MS) and thermally assisted hydrolysis and methylation (THM-GC-MS), we analyzed the molecular composition of these SOM fractions, aiming to understand the differences in14C ages and to gain insight on SOM dynamics in relation to age fractionation. The molecular composition of the NaOH-extractable SOM, which accounts for roughly two-thirds of total SOM, has a larger proportion of microbial detritus than the NaOH-insoluble SOM. This might suggest that the discrepancies between the two fractions is due to microbial rejuvenation in the extractable fraction, leading to14C results that are younger than the activity that is to be dated. However, archaeological evidence presented here unambiguously shows that the14C age of the extractable SOM provides the more accurate age for the targeted activity, and that the insoluble fraction contains inherited old carbon. After statistical data evaluation using Partial Least Squares-Regression (PLS-R), it is concluded that this inherited SOM is a mixture of Black Carbon from wild and/or domestic fires and recalcitrant aliphatic SOM.Arctic climate warming is causing permafrost thaw and erosion, which may lead to enhanced inputs of terrestrial organic matter into Arctic Ocean shelf sediments. Degradation of terrestrial organic matter in sediments might contribute to carbon dioxide production and bottom water acidification. Yet, the degradability of organic matter in shallow Arctic Ocean sediments, as well as the contribution of terrestrial input, is poorly quantified. Here, potential organic matter degradation rates were investigated for 16 surface sediments from the Kara Sea, Laptev Sea, and the western East Siberian Sea and compared with physicochemical sediment properties including molecular biomarkers, stable and radioactive carbon isotopes, and grain size. Aerobic oxygen and carbon dioxide fluxes, measured in laboratory incubations of sediment slurry, showed high spatial variability and correlated significantly with organic carbon content as well as with the amount and degradation state of terrestrial organic matter. The dependency on terrestrial organic matter declined with increasing distance from land, indicating that the presence of terrestrial organic matter is likely a constraining factor for organic matter degradation in shallow shelf seas. However, sediment oxygen consumption rates, measured in incubations of intact sediment cores, also exhibited substantial spatial variability but were not related to organic carbon content or terrestrial influence. Oxygen consumption of intact sediments may be more strongly influenced by in situ redox conditions. Together with previous observations, our findings support that terrestrial organic matter is easily degradable in shelf sea sediments and might substantially contribute to aerobic carbon dioxide production and oxygen consumption.Arctic climate warming is causing permafrost thaw and erosion, which may lead to enhanced inputs of terrestrial organic matter into Arctic Ocean shelf sediments. Degradation of terrestrial organic matter in sediments might contribute to carbon dioxide production and bottom water acidification. Yet, the degradability of organic matter in shallow Arctic Ocean sediments, as well as the contribution of terrestrial input, is poorly quantified. Here, potential organic matter degradation rates were investigated for 16 surface sediments from the Kara Sea, Laptev Sea, and the western East Siberian Sea and compared with physicochemical sediment properties including molecular biomarkers, stable and radioactive carbon isotopes, and grain size. Aerobic oxygen and carbon dioxide fluxes, measured in laboratory incubations of sediment slurry, showed high spatial variability and correlated significantly with organic carbon content as well as with the amount and degradation state of terrestrial organic matter. The dependency on terrestrial organic matter declined with increasing distance from land, indicating that the presence of terrestrial organic matter is likely a constraining factor for organic matter degradation in shallow shelf seas. However, sediment oxygen consumption rates, measured in incubations of intact sediment cores, also exhibited substantial spatial variability but were not related to organic carbon content or terrestrial influence. Oxygen consumption of intact sediments may be more strongly influenced by in situ redox conditions. Together with previous observations, our findings support that terrestrial organic matter is easily degradable in shelf sea sediments and might substantially contribute to aerobic carbon dioxide production and oxygen consumption.Significant rates of atmospheric dihydrogen (H2) consumption have been observed in temperate soils due to the activity of high-affinity enzymes, such as the group 1h [NiFe]-hydrogenase. We designed broadly inclusive primers targeting the large subunit gene (hhyL) of group 1h [NiFe]-hydrogenases for long-read sequencing to explore its taxonomic distribution across soils. This approach revealed a diverse collection of microorganisms harboring hhyL, including previously unknown groups and taxonomically not assignable sequences. Acidobacterial group 1h [NiFe]-hydrogenase genes were abundant and expressed in temperate soils. To support the participation of acidobacteria in H2 consumption, we studied two representative mesophilic soil acidobacteria, which expressed group 1h [NiFe]-hydrogenases and consumed atmospheric H2 during carbon starvation. This is the first time mesophilic acidobacteria, which are abundant in ubiquitous temperate soils, have been shown to oxidize H2 down to below atmospheric concentrations. As this physiology allows bacteria to survive periods of carbon starvation, it could explain the success of soil acidobacteria. With our long-read sequencing approach of group 1h [NiFe]-hydrogenase genes, we show that the ability to oxidize atmospheric levels of H2 is more widely distributed among soil bacteria than previously recognized and could represent a common mechanism enabling bacteria to persist during periods of carbon deprivation.Little is known about the role of ant colonies in regulating the distribution and diversity of soil microbial communities across large spatial scales. Here, we conducted a survey across >1000\uffe2\uff80\uff89km in eastern Australia and found that, compared with surrounding bare soils, ant colonies promoted the richness (number of phylotypes) and relative abundance of rare taxa of fungi and bacteria. Ant nests were also an important reservoir for plant pathogens. Our study also provides a portfolio of microbial phylotypes only found in ant nests, and which are associated with high nutrient availability. Together, our work highlights the fact that ant nests are an important refugia for microbial diversity.