Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Bacterial root endosphere communities

ABSTRACT: Bacterial root endosphere communities associated with Schoenoplectus americanus Raw sequence reads

PROVIDER: PRJNA854092 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR19981600.fastq.gz	Fastqsanger.gz
	SRR19981601.fastq.gz	Fastqsanger.gz
	SRR19981602.fastq.gz	Fastqsanger.gz
	SRR19981603.fastq.gz	Fastqsanger.gz
	SRR19981604.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 183

Similar Datasets

Differential gene expression of endosphere and soil Bacillus mycoides isolate in response to root exudates using RNA sequencing

Project description:In general, the endosphere isolate EC18 showed more numbers of genes significantly altered in the presence of root exudates than the soil isolate SB8 . Some of the altered genes in the two strains showed overlap. Some of these genes were previously reported to be involved in microbe-plant interactions, such as organic substance metabolism, oxidation reduction, transmembrane transportation and a subset with putative or unknown function. It was also found some genes showed opposite trend among the two strains.

2017-04-26 | GSE98148 | GEO

Root-associated bacterial and fungal communities

Project description:Root-associated bacterial and fungal communities

| PRJEB32926 | ENA

Root associated bacterial communities and root metabolite composition are linked to nitrogen use efficiency in sorghum

Project description:Development of cereal crops with high nitrogen-use efficiency (NUE) is a priority for worldwide agriculture. In addition to conventional plant breeding and genetic engineering, the use of the plant microbiome offers another approach to improve crop NUE. To gain insight into the bacterial communities associated with sorghum lines that differ in NUE, a field experiment was designed comparing 24 diverse sorghum lines under sufficient and deficient nitrogen (N). Amplicon sequencing and untargeted gas chromatography-mass spectrometry (GC-MS) were used to characterize the bacterial communities and the root metabolome associated with sorghum genotypes varying in sensitivity to low N. We demonstrated that N stress and sorghum type (energy, sweet, and grain sorghum) significantly impacted the root-associated bacterial communities and root metabolite composition of sorghum. We found a positive correlation between sorghum NUE and bacterial richness and diversity in the rhizosphere. The greater alpha diversity in high NUE lines was associated with the decreased abundance of a dominant bacterial taxa, Pseudomonas. Multiple strong correlations were detected between root metabolites and rhizosphere bacterial communities in response to low-N stress. This indicates that the shift in the sorghum microbiome due to low-N is associated with the root metabolites of the host plant. Taken together, our findings suggest that host genetic regulation of root metabolites plays a role in defining the root-associated microbiome of sorghum genotypes differing in NUE and tolerance to low-N stress.

2023-08-29 | MSV000092783 | MassIVE

Plant Compartments, including rhizosphere soil, root endosphere and leaf endosphere

Project description:Plant Compartments, including rhizosphere soil, root endosphere and leaf endosphere Raw sequence reads

| PRJNA1063183 | ENA

Root-associated bacterial metagenome

Project description:Root-associated bacterial metagenome Raw sequence reads

| PRJNA395393 | ENA

Root associated bacterial metagenome

Project description:Root associated bacterial metagenome raw sequence reads

| PRJNA434066 | ENA

GNPS - Root associated bacterial communities and root metabolite composition are linked to nitrogen use efficiency in sorghum

2023-08-29 | MSV000092783 | GNPS

Schoenoplectus americanus

Project description:Schoenoplectus americanus overview

| PRJNA582159 | ENA

Root-associated bacterial and fungal communities of eight Brassica napus varieties

Project description:Root-associated bacterial and fungal communities of eight Brassica napus varieties

| PRJNA765035 | ENA

Sweet Sorghum Genotypes Tolerant and Sensitive to Nitrogen Stress Select Distinct Root Endosphere and Rhizosphere Bacterial Communities.

Project description:The belowground microbiomes have many beneficial functions that assist plant growth, including nutrient cycling, acquisition and transport, as well as alleviation of stresses caused by nutrient limitations such as nitrogen (N). Here we analyzed the root endosphere, rhizosphere and soil bacterial communities of seven sweet sorghum genotypes differing in sensitivity to N-stress. Sorghum genotypes were grown in fields with no (low-N) or sufficient (high-N) N. The dry shoot weight ratio (low-N/high-N) was used to determine N-stress sensitivity. Our hypothesis was that genotypes tolerant and sensitive to N-stress select distinct bacterial communities. The endosphere and rhizosphere bacterial community structure were significantly different between the N-stress sensitive and tolerant genotypes in the high-N field, but not in the low-N field. However, significant changes in the relative abundance of specific bacterial taxa were observed in both fields. Streptomyces, a bacterial genus known to alleviate plant abiotic stresses, was enriched in the endosphere and rhizosphere of the tolerant genotypes in the low-N field. Our study indicates that sweet sorghum genotypes tolerant to N-stress select taxa that can potentially mitigate the N-stress, suggesting that the interactions between N-stress tolerant lines and the root-associated microbiome might be vital for coping with N-stress.

| S-EPMC8234256 | biostudies-literature

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