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ABSTRACT: EMG produced TPA metagenomics assembly of PRJNA952100 data set (Metagenomic analysis of soil microbial communities).

PROVIDER: PRJEB72693 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR24060701.fasta.gz	Fasta.gz
	SRR24060693.fasta.gz	Fasta.gz
	SRR24060692.fasta.gz	Fasta.gz
	SRR24060695.fasta.gz	Fasta.gz
	SRR24060694.fasta.gz	Fasta.gz

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The preceding root system drives the rhizosphere microbiome

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:Understanding and quantifying the effects of environmental factors influencing the variation of abundance and diversity of microbial communities was a key theme of ecology. For microbial communities, there were two factors proposed in explaining the variation in current theory, which were contemporary environmental heterogeneity and historical events. Here, we report a study to profile soil microbial structure, which infers functional roles of microbial communities, along the latitudinal gradient from the north to the south in China mainland, aiming to explore potential microbial responses to external condition, especially for global climate changes via a strategy of space-for-time substitution. Using a microarray-based metagenomics tool named GeoChip 5.0, we showed that microbial communities were distinct for most but not all of the sites. Using substantial statistical analyses, exploring the dominant factor in influencing the soil microbial communities along the latitudinal gradient. Substantial variations were apparent in nutrient cycling genes, but they were in line with the functional roles of these genes. 300 samples were collected from 30 sites along the latitudinal gradient, with 10 replicates in every site

2015-05-23 | E-GEOD-69171 | biostudies-arrayexpress

The microbial functional structure along the latitudinal gradient from the north to the south in China mainland as characterized by GeoChip

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Project description:EMG produced TPA metagenomics assembly of PRJNA646351 data set (Metagenomic data of mice).

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Project description:EMG produced TPA metagenomics assembly of PRJNA301235 data set (Moose metagenomic assembly).

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Mediterranean grassland soil C-N compound turnover is mediated by genomically novel organisms, depth stratified, and rainfall dependent

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The Microbial Gene Diversity along an Elevation Gradient of the Tibetan alpine meadow

Project description:Tibet is one of the most threatened regions by climate warming, thus understanding how its microbial communities function may be of high importance for predicting microbial responses to climate changes. Here, we report a study to profile soil microbial structural genes, which infers functional roles of microbial communities, aiming to explore potential microbial responses to climate changes via a strategy of space-for-time substitution. Using a microarray-based metagenomics tool named GeoChip 4.0, we showed that microbial communities were distinct for most but not all of the sites. Substantial variations were apparent in stress, N and C cycling genes, but they were in line with the functional roles of these genes. sixty-three samples were collected from four elevations (3200,3400,3600 and 3800 m) along a Tibetan alpine meadow; Three replicates in each treatment

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Project description:EMG produced TPA metagenomics assembly of PRJNA419970 data set (Metagenomic analysis exploring soil microbial communities associated with Antarctic vascular plants).

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