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Crop plant rhizosphere metatranscriptomics

ABSTRACT: Transcriptomic analysis of microbial communities isolated from the rhizospheres of wheat, oat and pea, compared to unplanted soil

PROVIDER: PRJEB6752 | ENA |

REPOSITORIES: ENA

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			Action	DRS
		Other
	ERR566373_1.fastq.gz	Fastqsanger.gz
	ERR566373_2.fastq.gz	Fastqsanger.gz
	ERR566374_1.fastq.gz	Fastqsanger.gz
	ERR566374_2.fastq.gz	Fastqsanger.gz

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Crop plant rhizosphere metatranscriptomics

Project description:Transcriptomic analysis of microbial communities isolated from the rhizospheres of wheat, oat and pea, compared to unplanted soil.

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Genome sequencing of 22 Pseudomonas isolates from the rhizosphere of the barley variety Chevallier and 20 Psuedomonas isolates from the rhizosphere of the barley variety Tipple.

Project description:Chevallier is a heritage english landrace of barley first planted in 1820 while Tipple is modern cultivar of barley released in 2004. Pseudomonas strains were isolated from the rhizospheres of the two varieties and 22 and 20 of the most phylogenetically distinct ones were sequenced to find out the difference in genotypes preferentially selected in the rhizospheres of the two cultivars.

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Rhizosphere bacterial community in re-used cover crop root channels initiate responses against drought

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.

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Project description:This study was conducted to evaluate the efficiency of cross-species detection in Barley1 GeneChip array. We hybridized cRNA derived from first leaves of barley green seedlings (as a control), as well as the same stage of seedling leaf from representative genotypes of wheat, oat, rice, maize, and sorghum. Ten to twenty seedlings for each species were harvested and pooled for RNA preparation, labeling, and hybridization. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Rico Caldo. The equivalent experiment is BB1 at PLEXdb.] species: Barley(2-replications); species: Wheat(2-replications); species: Oat(2-replications); species: Sorghum(2-replications); species: Corn(2-replications); species: Rice(2-replications)

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