Ontology highlight
ABSTRACT:
PROVIDER: PRJNA638437 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR11970716.fastq.gz | Fastqsanger.gz | |||
| SRR11970717.fastq.gz | Fastqsanger.gz |
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Project description:Purpose: Fungi actively weather silicate minerals to extract nutrients, using different mechanisms. However, it is not clear whether the same mechanism(s) is used for all minerals. The question addressed here is whether distinct minerals can stimulate different weathering mechanisms and lead to a shift in fungal genes expression. Methods: Microcosm experiments were set up with one fungus and three minerals containing the same targeted metal nutrient (K), but with a variable degree of resistance to dissolution. The experiment used transcriptomics to compare the active gene expression of the ectomycorrhizal basidiomycetes Paxillus involutus fungus in response to developing on each of the three minerals as sole K sources. The selected minerals, with a decreasing resistance to K extraction, were: muscovite, phlogopite, and K-exchanged vermiculite. Results: Gene expression analysis after the experiments indicated that the level of K-deprivation stress was muscovite > phlogopite >> K-vermiculite. Genes and functions overexpressed in the experiments indicated meaningful metabolic activities including K extraction and transport. Conclusions: The fungus Paxillus involutus activated different metabolic pathways and, accordingly, switched on or off different genes depending on the minerals from which it was forced to obtain potassium, a fundamental nutrient for its growth. The differential expression of the fungal genes generated alternative chemical attacks on the minerals, resulting in a tailored kind of dissolution and selective uptake of chemical elements. When exposed to K-vermiculite, the fungus overexpressed gene sets related to the organisation of the cytoskeleton and also to vesicle-mediated transport. If phlogopite was supplied, the fungus overexpressed gene sets involved with organic acid and oxoacid metabolic processes. When the only source of potassium was muscovite, the fungus overexpressed monooxygenase activity and oxidoreductase activity. These changing strategies, which resulted in a different impact on the fungal uptake of the elements, always granted some potassium to the fungus.
2025-10-03 | GSE158973 | GEO
Project description:Ectomycorrhizal fungi are dependent on host trees for carbon supply. In return ectomycorrhizal fungi supply trees with water and nutrients. It is known that when ectomycorrhizal fungi have exploited a nutrient rich patch in soil, the carbon allocation to mycelia in that patch is reduced, with the consequence of mycelia dying, but less is known of the dynamics of this senescence. We cultivated the ectomycorrhizal fungus Paxillus involutus in an axenic system. We collected growth and transcriptome data at different stages of carbon starvation during fungal growth. Carbon starvation induced a decrease in fungal biomass, which coincided with the release of NH4+ and the expression of genes connected with autophagy as well as protease and chitinase activity. Monoaromatic compounds, chitin and protease activity was detected in the liquid growth media during carbon starvation. The exudation of NH4+ and increase of monoaromatic compound during C starvation suggests senescence and autolysis of P. involutus. Together with the upregulation of genes involved in autophagy, chitinase and endopeptidase activity this points towards a controlled senescence including recycling of compounds originating from the fungi. Reduced C allocation to ectomycorrhizal mycelia in recently depleted nutrient patches in forest soils must be of ubiquitous nature. Understanding the mechanisms during exploitation of nutrients by ectomycorrhizal fungi is of great importance for understanding carbon and nutrient dynamics in forest soils. This is to our knowledge the first study describing the carbon starvation response in an ectomycorrhizal fungus.
2014-04-01 | GSE54940 | GEO
Project description:Ectomycorrhizal fungi are dependent on host trees for carbon supply. In return ectomycorrhizal fungi supply trees with water and nutrients. It is known that when ectomycorrhizal fungi have exploited a nutrient rich patch in soil, the carbon allocation to mycelia in that patch is reduced, with the consequence of mycelia dying, but less is known of the dynamics of this senescence. We cultivated the ectomycorrhizal fungus Paxillus involutus in an axenic system. We collected growth and transcriptome data at different stages of carbon starvation during fungal growth. Carbon starvation induced a decrease in fungal biomass, which coincided with the release of NH4+ and the expression of genes connected with autophagy as well as protease and chitinase activity. Monoaromatic compounds, chitin and protease activity was detected in the liquid growth media during carbon starvation. The exudation of NH4+ and increase of monoaromatic compound during C starvation suggests senescence and autolysis of P. involutus. Together with the upregulation of genes involved in autophagy, chitinase and endopeptidase activity this points towards a controlled senescence including recycling of compounds originating from the fungi. Reduced C allocation to ectomycorrhizal mycelia in recently depleted nutrient patches in forest soils must be of ubiquitous nature. Understanding the mechanisms during exploitation of nutrients by ectomycorrhizal fungi is of great importance for understanding carbon and nutrient dynamics in forest soils. This is to our knowledge the first study describing the carbon starvation response in an ectomycorrhizal fungus. A one-chip study (data from 12 subarrays collected from a 12-plex Nimblegen microarray (ID 527890) using total RNA recovered from three separate glass-bead cultures of Paxillus involutus (ATCC200175) grown on Minimum Melin Norkrans medium (MMN) amended with ammonium (C/N ratio 3) and harvested at different times of carbon starvation.)
2014-04-01 | E-GEOD-54940 | biostudies-arrayexpress
Project description:root-associated fungi from Hawaiian soils Raw sequence reads
| PRJNA316729 | ENA