{"type": "FeatureCollection", "features": [{"id": "10.1038/s41598-023-49194-y", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:17:53Z", "type": "Journal Article", "created": "2023-12-13", "title": "Unraveling the genome of Bacillus velezensis MEP218, a strain producing fengycin homologs with broad antibacterial activity: comprehensive comparative genome analysis", "description": "Abstract

Bacillus sp. MEP218, a soil bacterium with high potential as a source of bioactive molecules, produces mostly C16\uffe2\uff80\uff93C17 fengycin and other cyclic lipopeptides (CLP) when growing under previously optimized culture conditions. This work addressed the elucidation of the genome sequence of MEP218 and its taxonomic classification. The genome comprises 3,944,892\uffc2\uffa0bp, with a total of 3474 coding sequences and a G\uffe2\uff80\uff89+\uffe2\uff80\uff89C content of 46.59%. Our phylogenetic analysis to determine the taxonomic position demonstrated that the assignment of the MEP218 strain to Bacillus velezensis species provides insights into its evolutionary context and potential functional attributes. The in silico genome analysis revealed eleven gene clusters involved in the synthesis of secondary metabolites, including non-ribosomal CLP (fengycins and surfactin), polyketides, terpenes, and bacteriocins. Furthermore, genes encoding phytase, involved in the release of phytic phosphate for plant and animal nutrition, or other enzymes such as cellulase, xylanase, and alpha 1\uffe2\uff80\uff934 glucanase were detected. In vitro antagonistic assays against Salmonella typhimurium, Acinetobacter baumanii, Escherichia coli, among others, demonstrated a broad spectrum of C16\uffe2\uff80\uff93C17 fengycin produced by MEP218. MEP218 genome sequence analysis expanded our understanding of the diversity and genetic relationships within the Bacillus genus and updated the Bacillus databases with its unique trait to produce antibacterial fengycins and its potential as a resource of biotechnologically useful enzymes.The mountain birch [Betula pubescens var. pumila (L.)] forest in the Subarctic is periodically exposed to insect outbreaks, which are expected to intensify due to climate change. To mitigate abiotic and biotic stresses, plants have evolved chemical defenses, including volatile organic compounds (VOCs) and non-volatile specialized compounds (NVSCs). Constitutive and induced production of these compounds, however, are poorly studied in Subarctic populations of mountain birch. Here, we assessed the joint effects of insect herbivory, elevation and season on foliar VOC emissions and NVSC contents of mountain birch. The VOCs were sampled in situ by an enclosure technique and analyzed by gas chromatography\uffe2\uff80\uff93mass spectrometry. NVSCs were analyzed by liquid chromatography\uffe2\uff80\uff93mass spectrometry using an untargeted approach. At low elevation, experimental herbivory by winter moth larvae (Operophtera brumata) increased emissions of monoterpenes and homoterpenes over the 3-week feeding period, and sesquiterpenes and green leaf volatiles at the end of the feeding period. At high elevation, however, herbivory augmented only homoterpene emissions. The more pronounced herbivory effects at low elevation were likely due to higher herbivory intensity. Of the individual compounds, linalool, ocimene, 4,8-dimethylnona-1,3,7-triene, 2-methyl butanenitrile and benzyl nitrile were among the most responsive compounds in herbivory treatments. Herbivory also altered foliar NVSC profiles at both low and high elevations, with the most responsive compounds likely belonging to fatty acyl glycosides and terpene glycosides. Additionally, VOC emissions from non-infested branches were higher at high than low elevation, particularly during the early season, which was mainly driven by phenological differences. The VOC emissions varied substantially over the season, largely reflecting the seasonal variations in temperature and light levels. Our results suggest that if insect herbivory pressure continues to rise in the mountain birch forest with ongoing climate change, it will significantly increase VOC emissions with important consequences for local trophic interactions and climate.

", "keywords": ["0301 basic medicine", "Volatile Organic Compounds", "0303 health sciences", "secondary metabolites", "VDP::Zoologiske og botaniske fag: 480", "plant\u2013insect interactions", "Moths", "15. Life on land", "geometrid moth", "Plant Leaves", "03 medical and health sciences", "biotic stress", "13. Climate action", "volatile organic compounds", "Larva", "8. Economic growth", "11. Sustainability", "VDP::Zoology and botany: 480", "Animals", "Herbivory", "Seasons", "global change", "Betula", "Research Paper"]}, "links": [{"href": "http://academic.oup.com/treephys/article-pdf/41/6/1019/38497290/tpab023.pdf"}, {"href": "https://doi.org/10.1093/treephys/tpab023"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Tree%20Physiology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1093/treephys/tpab023", "name": "item", "description": "10.1093/treephys/tpab023", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1093/treephys/tpab023"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-02-18T00:00:00Z"}}, {"id": "10.1111/1365-2745.13504", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:18:38Z", "type": "Journal Article", "created": "2020-09-25", "title": "Invasive earthworms reduce chemical defense and increase herbivory and pathogen infection in native trees", "description": "Abstract

Recent research shows that earthworms can alter defense traits of plants against herbivores and pathogens by affecting soil biochemistry. Yet, the effects of invasive earthworms on defense traits of native plants from previously earthworm\uffe2\uff80\uff90free ecosystems as well as the consequences for multitrophic interactions are virtually unknown.

Here we use a combination of an observational study and a complementary experimental study to investigate the effects of invasive earthworms on leaf defense traits, herbivore damage and pathogen infection in two poplar tree species (Populus balsamifera and Populus tremuloides) native to North American boreal forests.

Our observational study showed that earthworm invasion was associated with enhanced leaf herbivory (by leaf\uffe2\uff80\uff90chewing insects) in saplings of both tree species. However, we only detected significant shifts in the concentration of chemical defense compounds in response to earthworm invasion for P. balsamifera. Specifically, leaf phenolic concentrations, including salicinoids and catechin, were lower in P. balsamifera from earthworm\uffe2\uff80\uff90invaded sites.

Our experimental study confirmed an earthworm\uffe2\uff80\uff90induced reduction in leaf defense levels in P. balsamifera for one of the defense compounds, tremulacin. The experimental study additionally showed that invasive earthworms reduced leaf dry matter content, potentially increasing leaf palatability, and enhanced susceptibility of trees to infection by a fungal pathogen, but not to aphid infestation, in the same tree species.

Synthesis. Our results show that invasive earthworms can decrease the concentrations of some chemical defense compounds in P. balsamifera, which could make them susceptible to leaf\uffe2\uff80\uff90chewing insects. Such potential impacts of invasive earthworms are likely to have implications for tree survival and competition, native tree biodiversity and ecosystem functioning.

", "keywords": ["0106 biological sciences", "multi-trophic interactions", "secondary metabolites", "15. Life on land", "01 natural sciences", "invasion ecology", "plant\u2013herbivore interactions", "13. Climate action", "international", "physical defense", "570 Life sciences; biology", "boreal forests", "Plan_S-Compliant_TA", "Research Articles", "belowground invasion"]}, "links": [{"href": "https://boris.unibe.ch/152111/1/1365-2745.13504.pdf"}, {"href": "https://besjournals.onlinelibrary.wiley.com/doi/pdf/10.1111/1365-2745.13504"}, {"href": "https://doi.org/10.1111/1365-2745.13504"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20Ecology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1111/1365-2745.13504", "name": "item", "description": "10.1111/1365-2745.13504", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1111/1365-2745.13504"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-10-09T00:00:00Z"}}, {"id": "10.15482/usda.adc/1518485", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:19:47Z", "type": "Dataset", "title": "Data from: Genome sequence of the chestnut blight fungus Cryphonectria parasitica EP155: A fundamental resource for an archetypical invasive plant pathogen", "description": "The ascomycete fungus Cryphonectria parasitica is the causal agent of chestnut blight disease. This deadly fungal pathogen was introduced into North America from Asia before the turn of the 20th century, quickly spreading throughout the natural range of the American chestnut tree. In the course of a single generation, chestnut blight destroyed billions of American chestnut trees in forests across North America, driving it almost to extinction. The genome assembly for C. parasitica EP155 (v. 2.0, available at https://mycocosm.jgi.doe.gov/Crypa2/Crypa2.info.html) contains 26 main genome scaffolds totaling 43.9 Mb, and was sequenced at the U.S. Department of Energy Joint Genome Institute. The information and documents contained within this Ag Data Commons dataset provide supplementary data about the EP155 genome assembly, including scaffold summaries, genetic maps, mitochondrial DNA, P450s, secondary metabolite clusters, vegetative incompatibility genes, and transposable elements. These data are freely available for research purposes.", "keywords": ["15. Life on land", "chestnut blight", "Cryphonectria parasitica", "vegetative incompatibility", "transposons", "P450", "secondary metabolite", "mitochondria", "fungi", "Forest & Plant Health", "american chestnut", "genome assembly", "transposable elements", "genetic maps", "NP303", "Cryphonectria parasitica", "fungi", "invasive species", "plant pathogens", "Asia", "Castanea dentata", "trees", "forests", "extinction", "genome assembly", "United States", "silver", "data collection", "mitochondrial DNA", "secondary metabolites", "genes", "transposons", "phylogeny", "cytochrome P-450", "enzymes", "nuclear genome", "mitochondria"]}, "links": [{"href": "https://doi.org/10.15482/usda.adc/1518485"}, {"rel": "self", "type": "application/geo+json", "title": "10.15482/usda.adc/1518485", "name": "item", "description": "10.15482/usda.adc/1518485", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.15482/usda.adc/1518485"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-01-01T00:00:00Z"}}, {"id": "10.3390/microorganisms10122479", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:21:03Z", "type": "Journal Article", "created": "2022-12-15", "title": "Flavonoids Are Intra- and Inter-Kingdom Modulator Signals", "description": "

Flavonoids are a broad class of secondary metabolites with multifaceted functionalities for plant homeostasis and are involved in facing both biotic and abiotic stresses to sustain plant growth and health. Furthermore, they were discovered as mediators of plant networking with the surrounding environment, showing a surprising ability to perform as signaling compounds for a multitrophic inter-kingdom level of communication that influences the plant host at the phytobiome scale. Flavonoids orchestrate plant-neighboring plant allelopathic interactions, recruit beneficial bacteria and mycorrhizal fungi, counteract pathogen outbreak, influence soil microbiome and affect plant physiology to improve its resilience to fluctuating environmental conditions. This review focuses on the diversified spectrum of flavonoid functions in plants under a variety of stresses in the modulation of plant morphogenesis in response to environmental clues, as well as their role as inter-kingdom signaling molecules with micro- and macroorganisms. Regarding the latter, the review addresses flavonoids as key phytochemicals in the human diet, considering their abundance in fruits and edible plants. Recent evidence highlights their role as nutraceuticals, probiotics and as promising new drugs for the treatment of several pathologies.

", "keywords": ["0301 basic medicine", "phytochemicals; root exudates; phytobiome; plant-microbe interactions; beneficial microbes; plant secondary metabolites; abiotic stress; biotic stress; rhizosphere; microbiome", "0303 health sciences", "03 medical and health sciences", "beneficial microbes", "QH301-705.5", "phytobiome", "plant-microbe interactions", "Review", "Biology (General)", "phytochemicals", "root exudates", "plant secondary metabolites"]}, "links": [{"href": "https://air.unimi.it/bitstream/2434/949072/2/Ghitti%20et%20al%202022%20flavonoids%20are%20intra%20and%20inter%20kingdom%20modulator%20signals.pdf"}, {"href": "https://doi.org/10.3390/microorganisms10122479"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microorganisms", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/microorganisms10122479", "name": "item", "description": "10.3390/microorganisms10122479", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/microorganisms10122479"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-12-15T00:00:00Z"}}, {"id": "10.3390/molecules26113140", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:21:04Z", "type": "Journal Article", "created": "2021-05-25", "title": "Pharmacological Insights into Halophyte Bioactive Extract Action on Anti-Inflammatory, Pain Relief and Antibiotics-Type Mechanisms", "description": "

The pharmacological activities in bioactive plant extracts play an increasing role in sustainable resources for valorization and biomedical applications. Bioactive phytochemicals, including natural compounds, secondary metabolites and their derivatives, have attracted significant attention for use in both medicinal products and cosmetic products. Our review highlights the pharmacological mode-of-action and current biomedical applications of key bioactive compounds applied as anti-inflammatory, bactericidal with antibiotics effects, and pain relief purposes in controlled clinical studies or preclinical studies. In this systematic review, the availability of bioactive compounds from several salt-tolerant plant species, mainly focusing on the three promising species Aster tripolium, Crithmum maritimum and Salicornia europaea, are summarized and discussed. All three of them have been widely used in natural folk medicines and are now in the focus for future nutraceutical and pharmacological applications.

", "keywords": ["0301 basic medicine", "Dewey Decimal Classification::500 | Naturwissenschaften::540 | Chemie", "hydroxycinnamic acid", "Anti-Inflammatory Agents", "Organic chemistry", "Review", "03 medical and health sciences", "QD241-441", "Halophytes", "Humans", "nutraceuticals", "Inflammation", "2. Zero hunger", "Analgesics", "0303 health sciences", "secondary metabolites", "Plant Extracts", "halophytes", "Secondary metabolites", "Hydroxycinnamic acid", "Salt-Tolerant Plants", "15. Life on land", "Anti-Bacterial Agents", "3. Good health", "inflammation", "Nutraceuticals"]}, "links": [{"href": "https://www.mdpi.com/1420-3049/26/11/3140/pdf"}, {"href": "https://doi.org/10.3390/molecules26113140"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Molecules", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3390/molecules26113140", "name": "item", "description": "10.3390/molecules26113140", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3390/molecules26113140"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-05-24T00:00:00Z"}}, {"id": "10.5061/dryad.gv2qr76", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:21:34Z", "type": "Dataset", "title": "Data from: Positive plant-soil feedbacks trigger tannin evolution by niche construction: a spatial stoichiometric model", "description": "unspecifiedspatial implicitPython 2 code to reproduce Fig. 3. The prediction for tannin evolution in the spatial implicit approach, as a function of turnover rate and soil fertility.cellular_automatonPython 2 code of the cellular automaton, used to generate Fig. 2 and Fig. 4.coevolutionPython 2 code to smile;ulate the coevolutionary dynamics of symbiotic capacity and tannin production.", "keywords": ["2. Zero hunger", "spatial dynamics", "plant\u2013herbivore interactions", "Niche construction", "15. Life on land", "Plant secondary metabolites", "mycorrhizae", "Stoichiometry"], "contacts": [{"organization": "Arnoldi, Jean-Fran\u00e7ois, Coq, Sylvain, K\u00e9fi, Sonia, Ibanez, Sebastien,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5061/dryad.gv2qr76"}, {"rel": "self", "type": "application/geo+json", "title": "10.5061/dryad.gv2qr76", "name": "item", "description": "10.5061/dryad.gv2qr76", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5061/dryad.gv2qr76"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-06-19T00:00:00Z"}}, {"id": "2434/949072", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:25:49Z", "type": "Journal Article", "created": "2022-12-15", "title": "Flavonoids Are Intra- and Inter-Kingdom Modulator Signals", "description": "

Flavonoids are a broad class of secondary metabolites with multifaceted functionalities for plant homeostasis and are involved in facing both biotic and abiotic stresses to sustain plant growth and health. Furthermore, they were discovered as mediators of plant networking with the surrounding environment, showing a surprising ability to perform as signaling compounds for a multitrophic inter-kingdom level of communication that influences the plant host at the phytobiome scale. Flavonoids orchestrate plant-neighboring plant allelopathic interactions, recruit beneficial bacteria and mycorrhizal fungi, counteract pathogen outbreak, influence soil microbiome and affect plant physiology to improve its resilience to fluctuating environmental conditions. This review focuses on the diversified spectrum of flavonoid functions in plants under a variety of stresses in the modulation of plant morphogenesis in response to environmental clues, as well as their role as inter-kingdom signaling molecules with micro- and macroorganisms. Regarding the latter, the review addresses flavonoids as key phytochemicals in the human diet, considering their abundance in fruits and edible plants. Recent evidence highlights their role as nutraceuticals, probiotics and as promising new drugs for the treatment of several pathologies.

", "keywords": ["0301 basic medicine", "phytochemicals; root exudates; phytobiome; plant-microbe interactions; beneficial microbes; plant secondary metabolites; abiotic stress; biotic stress; rhizosphere; microbiome", "0303 health sciences", "03 medical and health sciences", "beneficial microbes", "QH301-705.5", "phytobiome", "plant-microbe interactions", "Review", "Biology (General)", "phytochemicals", "root exudates", "plant secondary metabolites"]}, "links": [{"href": "https://air.unimi.it/bitstream/2434/949072/2/Ghitti%20et%20al%202022%20flavonoids%20are%20intra%20and%20inter%20kingdom%20modulator%20signals.pdf"}, {"href": "https://doi.org/2434/949072"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Microorganisms", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "2434/949072", "name": "item", "description": "2434/949072", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/2434/949072"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-12-15T00:00:00Z"}}, {"id": "11336/226991", "type": "Feature", "geometry": null, "properties": {"updated": "2026-07-25T16:25:00Z", "type": "Journal Article", "created": "2023-12-13", "title": "Unraveling the genome of Bacillus velezensis MEP218, a strain producing fengycin homologs with broad antibacterial activity: comprehensive comparative genome analysis", "description": "Abstract

Bacillus sp. MEP218, a soil bacterium with high potential as a source of bioactive molecules, produces mostly C16\uffe2\uff80\uff93C17 fengycin and other cyclic lipopeptides (CLP) when growing under previously optimized culture conditions. This work addressed the elucidation of the genome sequence of MEP218 and its taxonomic classification. The genome comprises 3,944,892\uffc2\uffa0bp, with a total of 3474 coding sequences and a G\uffe2\uff80\uff89+\uffe2\uff80\uff89C content of 46.59%. Our phylogenetic analysis to determine the taxonomic position demonstrated that the assignment of the MEP218 strain to Bacillus velezensis species provides insights into its evolutionary context and potential functional attributes. The in silico genome analysis revealed eleven gene clusters involved in the synthesis of secondary metabolites, including non-ribosomal CLP (fengycins and surfactin), polyketides, terpenes, and bacteriocins. Furthermore, genes encoding phytase, involved in the release of phytic phosphate for plant and animal nutrition, or other enzymes such as cellulase, xylanase, and alpha 1\uffe2\uff80\uff934 glucanase were detected. In vitro antagonistic assays against Salmonella typhimurium, Acinetobacter baumanii, Escherichia coli, among others, demonstrated a broad spectrum of C16\uffe2\uff80\uff93C17 fengycin produced by MEP218. MEP218 genome sequence analysis expanded our understanding of the diversity and genetic relationships within the Bacillus genus and updated the Bacillus databases with its unique trait to produce antibacterial fengycins and its potential as a resource of biotechnologically useful enzymes.