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View article: Meloidogyne incognita parasitism is affected by Pseudomonas protegens CHA0 and its effects on tomato-associated microbiota
Meloidogyne incognita parasitism is affected by Pseudomonas protegens CHA0 and its effects on tomato-associated microbiota Open
Background The multitrophic interactions in plant rhizosphere and endosphere can be beneficial or deleterious for the plant health. The parasitism by root-feeding nematodes is on the negative end of the interaction spectrum, and may be ver…
View article: Environmental risk assessment at the microbial level: utilizing total RNA sequencing to evaluate the non-target impact of biochemicals in agriculture
Environmental risk assessment at the microbial level: utilizing total RNA sequencing to evaluate the non-target impact of biochemicals in agriculture Open
The use of biochemicals in agriculture has become crucial to meeting the global demand for food production. Agrochemicals, such as fertilizers and pesticides, are widely applied to enhance crop efficiency. Additionally, other chemicals lik…
View article: Total RNA analysis of the active microbiome on moving bed biofilm reactor carriers under incrementally increasing micropollutant concentrations
Total RNA analysis of the active microbiome on moving bed biofilm reactor carriers under incrementally increasing micropollutant concentrations Open
Micropollutants are increasingly prevalent in the aquatic environment. A major part of these originates from wastewater treatment plants since traditional treatment technologies do not remove micropollutants sufficiently. Moving bed biofil…
View article: Crop management strategies shape the shared temporal dynamics of soil food web structure and functioning
Crop management strategies shape the shared temporal dynamics of soil food web structure and functioning Open
International audience
View article: Fertilizer regime and cultivar affect barley growth and rhizobiome composition
Fertilizer regime and cultivar affect barley growth and rhizobiome composition Open
To combat climate change and environmental pollution, agriculture must reduce mineral fertilizer use and adopt sustainable, low-input, and organic practices. In such systems, plants depend on the soil microbiome for nutrient acquisition an…
View article: DNA metabarcoding reveals the impact of Cu2+ on soil cercozoan diversity
DNA metabarcoding reveals the impact of Cu2+ on soil cercozoan diversity Open
Although copper (Cu2+) is a micronutrient, the metal may be toxic if present in high concentrations in soil ecosystems and subsequently affect various organisms, ranging from microorganisms to earthworms. We performed a microcosm study wit…
View article: Cadmium accumulation in organisms from a spruce plantation amended with wood ash - an environmental risk?
Cadmium accumulation in organisms from a spruce plantation amended with wood ash - an environmental risk? Open
Recycling of wood ash from power plants to forest plantations returns plant nutrients lost at harvest. However, wood ash contains a considerable amount of cadmium (Cd) that may accumulate in the forest food web, and eventually threaten env…
View article: Fertilizer and cultivar affect the barley rhizobiome, while domestication age only affects growth at low nutrient levels
Fertilizer and cultivar affect the barley rhizobiome, while domestication age only affects growth at low nutrient levels Open
Modern plant breeding has provided barley cultivars that produce high yields when supplied with ample amounts of mineral fertilizer. This narrow selection criterion may have reduced key traits facilitating vital microbiome-plant interactio…
View article: Abrupt permafrost thaw triggers activity of copiotrophs and microbiome predators
Abrupt permafrost thaw triggers activity of copiotrophs and microbiome predators Open
Permafrost soils store a substantial part of the global soil carbon and nitrogen. However, global warming causes abrupt erosion and gradual thaw, which make these stocks vulnerable to microbial decomposition into greenhouse gases. Here, we…
View article: Activity of root-knot nematodes associated with composition of a nematode-attached microbiome and the surrounding soil microbiota
Activity of root-knot nematodes associated with composition of a nematode-attached microbiome and the surrounding soil microbiota Open
We investigated if activity of the pre-infective juveniles (J2s) of root-knot nematodes is linked to the recruitment of a specific microbiome on the nematode surface and/or to the composition of the surrounding microbiota. For this, we det…
View article: Revealing the contributions of the belowground plant root associated microbiome to soil aggregation in agricultural soils
Revealing the contributions of the belowground plant root associated microbiome to soil aggregation in agricultural soils Open
Soil aggregation is an important physical indicator of soil health. Aggregation result from biological and physicochemical processes in which primary soil particles and organic matter are bound. Biotic-mediated soil aggregation is mainly a…
View article: Ultrastructure and molecular phylogeny of Phalansterium foulumis sp. nov. (Amoebozoa: Variosea)
Ultrastructure and molecular phylogeny of Phalansterium foulumis sp. nov. (Amoebozoa: Variosea) Open
Representatives of the genus Phalansterium have single anterior flagellum surrounded by cytoplasmic collar. They belong to the class Variosea, which includes both typical amoeboid organisms (e.g., Flamella, Filamoeba) and some flagellates …
View article: Treated like dirt: Robust forensic and ecological inferences from soil <scp>eDNA</scp> after challenging sample storage
Treated like dirt: Robust forensic and ecological inferences from soil <span>eDNA</span> after challenging sample storage Open
Biodiversity of soil is routinely assessed with environmental DNA—most often by massive parallel sequencing of marker genes (eDNA metabarcoding). Soil biodiversity may be investigated in relation to biodiversity research or as a tool in fo…
View article: Biochar application differentially affects soil micro-, meso-macro-fauna and plant productivity within a nature restoration grassland
Biochar application differentially affects soil micro-, meso-macro-fauna and plant productivity within a nature restoration grassland Open
Biochar is proposed as an option to sequester carbon (C) in soils and promote other soil-based ecosystem services. However, its impact on soil biota from micro to macroscale remains poorly understood. We investigated biochar effects on the…
View article: Abrupt permafrost thaw triggers microbial bloom and grazer succession
Abrupt permafrost thaw triggers microbial bloom and grazer succession Open
Permafrost soils store a substantial part of the global soil carbon and nitrogen. However global warming causes abrupt erosion and gradual thaw, which make these stocks vulnerable to microbial decomposition into greenhouse gases. Here, we …
View article: Treated like dirt: Robust forensic and ecological inferences from soil eDNA after challenging sample storage
Treated like dirt: Robust forensic and ecological inferences from soil eDNA after challenging sample storage Open
Biodiversity of soil microbiota is routinely assessed with environmental DNA-based methods, among which amplification and massive parallel sequencing of marker genes (eDNA metabarcoding) is the most common. Soil microbiota may for example …
View article: Bacteria Respond Stronger Than Fungi Across a Steep Wood Ash-Driven pH Gradient
Bacteria Respond Stronger Than Fungi Across a Steep Wood Ash-Driven pH Gradient Open
Soil pH is probably the most important variable explaining bacterial richness and community composition locally as well as globally. In contrast, pH effects on fungi appear to be less pronounced, but also less studied. Here we analyze the …
View article: Can bryophyte groups increase functional resolution in tundra ecosystems?
Can bryophyte groups increase functional resolution in tundra ecosystems? Open
The relative contribution of bryophytes to plant diversity, primary productivity, and ecosystem functioning increases towards colder climates. Bryophytes respond to environmental changes at the species level, but because bryophyte species …
View article: Motivations of Volunteers in Danish Grazing Organizations
Motivations of Volunteers in Danish Grazing Organizations Open
Global biodiversity is under pressure from human activities, and the effort for nature conservation and restoration and the allocation of economic resources for biodiversity policies remain insufficient. In such a context, volunteers can p…
View article: Wood Ash Application Reduces Bryophyte Cover and Changes Species Composition in a Norway Spruce (Picea abies) Plantation
Wood Ash Application Reduces Bryophyte Cover and Changes Species Composition in a Norway Spruce (Picea abies) Plantation Open
Return of wood ash from power plants to plantations makes it possible to recycle nutrients, counteract acidification, and to reduce economically costly waste deposition of the wood ash. However, current legislation restricts the amount of …
View article: AgNO3 Sterilizes Grains of Barley (Hordeum vulgare) without Inhibiting Germination—A Necessary Tool for Plant–Microbiome Research
AgNO3 Sterilizes Grains of Barley (Hordeum vulgare) without Inhibiting Germination—A Necessary Tool for Plant–Microbiome Research Open
To understand and manipulate the interactions between plants and microorganisms, sterile seeds are a necessity. The seed microbiome (inside and surface microorganisms) is unknown for most plant species and seed-borne microorganisms can per…
View article: Total RNA sequencing reveals multilevel microbial community changes and functional responses to wood ash application in agricultural and forest soil
Total RNA sequencing reveals multilevel microbial community changes and functional responses to wood ash application in agricultural and forest soil Open
Recycling of wood ash from energy production may counteract soil acidification and return essential nutrients to soils. However, wood ash amendment affects soil physicochemical parameters that control composition and functional expression …
View article: Successional trophic complexity and biogeographical structure of eukaryotic communities in waterworks' rapid sand filters
Successional trophic complexity and biogeographical structure of eukaryotic communities in waterworks' rapid sand filters Open
As groundwater-fed waterworks clean their raw inlet water with sand filters, a variety of pro- and eukaryotic microbial communities develop on these filters. While several studies have targeted the prokaryotic sand filter communities, litt…
View article: Total RNA-sequencing reveals multi-level microbial community changes and functional responses to wood ash application in agricultural and forest soil
Total RNA-sequencing reveals multi-level microbial community changes and functional responses to wood ash application in agricultural and forest soil Open
Recycling of wood ash from energy production may counteract soil acidification and return essential nutrients to soils. However, wood ash amendment affects soil physicochemical parameters that control composition and functional expression …
View article: Bacterial and protozoan dynamics upon thawing and freezing of an active layer permafrost soil
Bacterial and protozoan dynamics upon thawing and freezing of an active layer permafrost soil Open
The active layer of soil overlaying permafrost in the Arctic is subjected to annual changes in temperature and soil chemistry, which we hypothesize to affect the overall soil microbial community. We investigated changes in soil microorgani…