Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Soil rhizosphere samples from a topographic gradient study

ABSTRACT: Soil rhizosphere samples from a topographic gradient study Raw sequence reads

PROVIDER: PRJNA623873 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR11513923_1.fastq.gz	Fastqsanger.gz
	SRR11513923_2.fastq.gz	Fastqsanger.gz
	SRR11513924_1.fastq.gz	Fastqsanger.gz
	SRR11513924_2.fastq.gz	Fastqsanger.gz
	SRR11513925_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 132

Similar Datasets

Rhizosphere soil samples

Project description:Rhizosphere soil samples Metagenome

| PRJNA1158536 | ENA

Metagenomic samples from along a rainfall gradient

Project description:Metagenomic samples from along a rainfall gradient

| PRJNA930013 | ENA

Rhizosphere soil samples

Project description:Rhizosphere soil samples Raw sequence reads

| PRJNA1043462 | ENA

rhizosphere soil samples

Project description:rhizosphere soil samples Raw sequence reads

| PRJNA669946 | ENA

rhizosphere soil samples

Project description:rhizosphere soil samples Raw sequence reads

| PRJNA662438 | ENA

Niche differentiation of arsenic-transforming microbial groups in rice rhizosphere compartments as impacted by water management and soil-As concentrations

Project description:Arsenic (As) bioavailability in the rice rhizosphere is influenced by many microbial interactions, particularly by metal-transforming functional groups at the root-soil interface. This study was conducted to examine As-transforming microbes and As-speciation in the rice rhizosphere compartments, in response to two different water management practices (continuous and intermittently flooded), established on fields with high to low soil-As concentration. Microbial functional gene composition in the rhizosphere and root-plaque compartments were characterized using the GeoChip 4.0 microarray. Arsenic speciation and concentrations were analyzed in the rhizosphere soil, root-plaque, porewater and grain samples. Results indicated that intermittent flooding significantly altered As-speciation in the rhizosphere, and reduced methyl-As and AsIII concentrations in the pore water, root-plaque and rice grain. Ordination and taxonomic analysis of detected gene-probes indicated that root-plaque and rhizosphere assembled significantly different metal-transforming functional groups. Taxonomic non-redundancy was evident, suggesting that As-reduction, -oxidation and -methylation processes were performed by different microbial groups. As-transformation was coupled to different biogeochemical cycling processes establishing functional non-redundancy of rice-rhizosphere microbiome in response to both rhizosphere compartmentalization and experimental treatments. This study confirmed diverse As-biotransformation at root-soil interface and provided novel insights on their responses to water management, which can be applied for mitigating As-bioavailability and accumulation in rice grains.

2021-07-12 | GSE179671 | GEO

Developmental profiling study along the maize leaf gradient

Project description:Developmental profiling study along the maize leaf gradient

| PRJEB48470 | ENA

Evaluation of Pseudomonas putida KT2440 gene expression in the Arabidopsis thaliana rhizosphere

Project description:Gene expression patterns of the plant colonizing bacterium,Pseudomonas putida KT2440 were evaluated as a function of growth in the Arabidopsis thaliana rhizosphere. Gene expression in rhizosphere grown P. putida cells was compared to gene expression in non-rhizosphere grown cells. Keywords: Gene expression

2008-01-11 | GSE9005 | GEO

GeoChip data of soil microbial communities in the maize rhizosphere and bulk soils

2014-09-12 | GSE61338 | GEO

GeoChip data of soil microbial communities in the maize rhizosphere and bulk soils

Project description:Microbial communities in the rhizosphere make significant contributions to crop health and nutrient cycling. However, their ability to perform important biogeochemical processes remains uncharacterized. Important functional genes, which characterize the rhizosphere microbial community, were identified to understand metabolic capabilities in the maize rhizosphere using GeoChip 3.0-based functional gene array method. Triplicate samples were taken for both rhizosphere and bulk soil, in which each individual sample was a pool of four plants or soil cores. To determine the abundance of functional genes in the rhizosphere and bulk soils, GeoChip 3.0 was used.

2014-09-12 | E-GEOD-61338 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data