Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1240274 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR32808700_1.fastq.gz | Fastqsanger.gz | |||
| SRR32808700_2.fastq.gz | Fastqsanger.gz | |||
| SRR32808800_1.fastq.gz | Fastqsanger.gz | |||
| SRR32808800_2.fastq.gz | Fastqsanger.gz | |||
| SRR32808701_1.fastq.gz | Fastqsanger.gz |
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Project description:Plant growth and development depends on the availability of nutrients and water resources in the soil. The increased frequencies of drought events over recent years have affected nutrient availability soil systems. Crops reutilising winter cover crop root channels allows access to resources from distal regions in the soil horizon. However, the availability of information regarding root channel reutilisation under drought, specifically bacterial community structures and functions is unknown. In this study, we observed the changes inflicted by drought on bacterial communities in maize (Zea mays L.) rhizospheres after reusing the winter cover crop root channels. The techniques of 16S rRNA (ribosomal ribonucleic acid) gene-based microbial profiling and metaproteomics were used to study the alterations in biochemical pathways of those communities under drought at three different locations (Hohenschulen, Karkendamm and Reinshof) comprising three different soli types (Luvisol, Podzol and Phaeozem) respectively. Besides the influence of soil properties, we noticed that under drought the relative abundances of Acidobacteriota, Actinomycetota, Planctomycetota, and Pseudomonadota increased, while Chloroflexota, Methylomirabilota, Patescibacterota, and Verrucomicrobiota decreased. At drought-prone soil types Luvisol and Podzol, aerobic communities Pseudomonadota and Verrucomicrobiota increased abundance of the glyoxylate cycle as a means of conserving carbon and energy for plausible survival measures. Higher abundance of catalase-glutathione peroxidase (CAT-PER) through the methionine cycle-transsulfuration pathway possibly alleviate reactive oxygen species (ROS) levels. Overall, bacterial communities in the reused cover crop root channels respond to drought by taking mitigative measures for survival.
2025-09-22 | PXD062138 | Pride
Project description:Cover cropping is an effective method to protect agricultural soils from erosion, promote nutrient and moisture retention, encourage beneficial microbial activity, and maintain soil structure. Reusing winter cover crop root channels with the maize roots during the summer allows the cash crop to extract resources from farther niches in the soil horizon. In this study, we investigate how reusing winter cover crop root channels to grow maize (Zea mays L.) affects the composition and function of the bacterial communities in the rhizosphere using 16S rRNA gene amplicon sequencing and metaproteomics. We discovered that the bacterial community significantly differed among cover crop variations, soil profile depths, and maize growth stages. Re-usage of the root channels increased bacterial abundance, and it further increases as we elevate the complexity from monocultures to mixtures. Upon mixing legumes with brassicas and grasses, the overall expression of several steps of the carbon cycle (C) and the nitrogen cycle (N) improved. The deeper root channels of legumes and brassicas compared to grasses correlated with higher bacterial 16S rRNA gene copy numbers and community roles in the respective variations in the subsoil regimes due to the increased availability of root exudates secreted by maize roots. In conclusion, root channel re-use (monocultures and mixtures) improved the expression of metabolic pathways of the important C and N cycles, and the bacterial communities, which is beneficial to the soil rhizosphere as well as to the growing crops.
2025-05-02 | PXD046832 | Pride
Project description:These samples are a part of a study investigating microbial responses to cover crop root exudates. We utilized 4 cover crop species (each with unique root exudate profiles), collected the pure root exudates, and applied them to soil mirocosms. metaG, metaT, metaP, and targeted and untargeted metabolomics were applied to assess the microbial responses.
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Project description:These samples are a part of a study investigating microbial responses to cover crop root exudates. We utilized 4 cover crop species (each with unique root exudate profiles), collected the pure root exudates, and applied them to soil mirocosms. metaG, metaT, metaP, and targeted and untargeted metabolomics were applied to assess the microbial responses.
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Project description:These samples are a part of a study investigating microbial responses to cover crop root exudates. We utilized 4 cover crop species (each with unique root exudate profiles), collected the pure root exudates, and applied them to soil mirocosms. metaG, metaT, metaP, and targeted and untargeted metabolomics were applied to assess the microbial responses.
| MSV000092999 | GNPS
Project description:These samples are a part of a study investigating microbial responses to cover crop root exudates. We utilized 4 cover crop species (each with unique root exudate profiles), collected the pure root exudates, and applied them to soil mirocosms. metaG, metaT, metaP, and targeted and untargeted metabolomics were applied to assess the microbial responses.
| MSV000092960 | GNPS
Project description:Background: The soil environment is responsible for sustaining most terrestrial plant life on earth, yet we know surprisingly little about the important functions carried out by diverse microbial communities in soil. Soil microbes that inhabit the channels of decaying root systems, the detritusphere, are likely to be essential for plant growth and health, as these channels are the preferred locations of new root growth. Understanding the microbial metagenome of the detritusphere and how it responds to agricultural management such as crop rotations and soil tillage will be vital for improving global food production. Methods: The rhizosphere soils of wheat and chickpea growing under + and - decaying root were collected for metagenomics sequencing. A gene catalogue was established by de novo assembling metagenomic sequencing. Genes abundance was compared between bulk soil and rhizosphere soils under different treatments. Conclusions: The study describes the diversity and functional capacity of a high-quality soil microbial metagenome. The results demonstrate the contribution of the microbiome from decaying root in determining the metagenome of developing root systems, which is fundamental to plant growth, since roots preferentially inhabit previous root channels. Modifications in root microbial function through soil management, can ultimately govern plant health, productivity and food security.
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Project description:Drought stress is a major environmental factor limiting crop productivity. Arbuscular mycorrhizal fungi (AMF), as beneficial soil microbes, can improve plant growth and stress resilience; however, the effectiveness of this symbiosis is often influenced by the host plant's genetic background. In this study, we investigated the interaction between AM symbiosis and drought tolerance in two foxtail millet (Setaria italica) genotypes with contrasting drought responses: the drought-tolerant ISE42 and the drought-sensitive TT8. Following a 14-day drought treatment, both genotypes exhibited wilting, but only AMF-colonized ISE42 plants recovered upon rewatering. Transcriptomic analysis revealed that AM symbiosis significantly enhanced the expression of genes involved in nitrogen transport, assimilation, lignin metabolism, and cellulose biosynthesis in ISE42, but not in TT8. These molecular changes suggest improved nutrient uptake and cell wall reinforcement as key mechanisms underlying enhanced drought tolerance. Additionally, stress hormone signaling pathways were downregulated in colonized ISE42 roots, indicating possible alleviation of drought-induced stress through AM symbiosis. Our results demonstrate genotype-specific effects of AMF on drought tolerance and highlight the importance of considering host genetic variation in the application of AMF for crop improvement.
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Project description:cover crop (19) root exudate profiles analyzed by non-targeted LC-MS/MS DDA
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