Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Carex duriuscula subsp. rigescens salt treated roots transcriptome data

PROVIDER: PRJNA860334 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR20700614.fastq.gz	Fastqsanger.gz
	SRR20700615.fastq.gz	Fastqsanger.gz

Items per page:

1 - 2 of 2

Similar Datasets

Project description:Carex duriuscula subsp. rigescens salt treated leaves transcriptome data

| PRJNA858393 | ENA

Carex duriuscula subsp. rigescens

Project description:Carex duriuscula subsp. rigescens Raw sequence reads

| PRJNA733858 | ENA

Carex duriuscula subsp. rigescens

Project description:Carex duriuscula subsp. rigescens Raw sequence reads(Second generation sequencing data)

| PRJNA733863 | ENA

Carex duriuscula

Project description:Carex duriuscula overview

| PRJNA917414 | ENA

Project description:Carex rigescens

| PRJNA1146766 | ENA

E-GEOD-71001

Project description:Transcription profiling by array of Arabidopsis roots treated with salt from bzip1, bzip53 double knockout

2015-11-26 | E-GEOD-71001 | ExpressionAtlas

Project description:The research of Carex rigescens salt tolerance mechanism

| PRJNA543550 | ENA

E-GEOD-51236

Project description:Expression data from MTF mutant roots

2015-05-11 | E-GEOD-51236 | ExpressionAtlas

E-GEOD-47195

Project description:SALT-RESPONSIVE ERF1 expression profiling in rice roots

2015-05-13 | E-GEOD-47195 | ExpressionAtlas

RNA sequencing of rice root in salt stress condition (250mM NaCl treatment)

Project description:Soil salinity is a major production constrain for agricultural crops, especially in Oryza sativa (rice). Analyzing physiological effect and molecular mechanism under salt stress is key for developing stress-tolerant plants. Roots system has a major role in coping with the osmotic change impacted by salinity and few salt-stress-related transcriptome studies in rice have been previously reported. However, transcriptome data sets using rice roots grown in soil condition are more relevant for further applications, but have not yet been available. The present work analyzed rice root and shoot physiological characteristics in response to salt stress using 250 mM NaCl for different timepoints. Subsequently, we identified that 5 day treatment is critical timepoint for stress response in the specific experimental design. We then generated RNA-Seq-based transcriptome data set with rice roots treated with 250 mM NaCl for 5 days along with untreated controls in soil condition using rice japonica cultivar Chilbo. We identified 447 upregulated genes under salt stress with more than fourfold changes (p value < 0.05, FDR < 0.05) and used qRT-PCR for six genes to confirm their salt-dependent induction patterns. GO-enrichment analysis indicated that carbohydrate and amino-acid metabolic process are significantly affected by the salt stress. MapMan overview analysis indicated that secondary metabolite-related genes are induced under salt stress. Metabolites profiling analysis confirmed that phenolics and flavonoids accumulate in root under salt stress. We further constructed a functional network consisting of regulatory genes based on predicted protein–protein interactions, suggesting useful regulatory molecular network for future applications.

2021-06-15 | E-MTAB-10653 | 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