Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

E-MTAB-3063

ABSTRACT: Transcription profiling by high throughput sequencing of samples of (local) infected and systemic, uninfected leaves of barley â€˜Barkeâ€™ plants that were infected with Pseudomonas syringae pathovar japonica or Xanthomonas translucens pathovar cerealis or given a mock treatment

PROVIDER: E-MTAB-3063 | ExpressionAtlas | 2017-09-19

REPOSITORIES: ExpressionAtlas

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	E-MTAB-3063-analysis-methods.tsv	Tabular
	E-MTAB-3063-analytics.tsv	Tabular
	E-MTAB-3063-atlasExperimentSummary.Rdata	Rdata
	E-MTAB-3063-configuration.xml	Xml
	E-MTAB-3063-g4_g1-mvaPlot.png	Other

Items per page:

1 - 5 of 39

Similar Datasets

Barley Systemic Immunity: Dataset Induced challenged

Project description:Leaf-to-leaf, systemic immune signaling known as systemic acquired resistance (SAR) is poorly understood in monocotyledonous plants. Here, we characterize systemic immunity in barley (Hordeum vulgare) triggered after primary leaf infection with either Pseudomonas syringae pathovar japonica (Psj) or Xanthomonas translucens pathovar cerealis (Xtc). Both pathogens induced resistance in systemic, uninfected leaves against a subsequent challenge infection with Xtc. In contrast to SAR in Arabidopsis thaliana, systemic immunity in barley was not associated with NONEXPRESSOR OF PATHOGENESIS-RELATED GENES1 or the local or systemic accumulation of salicylic acid (SA). Instead, we documented a moderate local but not systemic induction of abscisic acid (ABA) after infection of leaves with Psj. In contrast to SA or its functional analog benzothiadiazole, local applications of the jasmonic acid methyl ester or ABA triggered systemic immunity to Xtc. RNA-seq analysis of local and systemic transcript accumulation revealed unique gene expression changes in response to both Psj and Xtc and a clear separation of local from systemic responses. The systemic response appeared relatively modest and quantitative RT-PCR associated systemic immunity with the local and systemic induction of two WRKY and two ETHYLENE RESPONSIVE FACTOR-like transcription factors. Systemic immunity against Xtc was further associated with transcriptional changes after a secondary/systemic Xtc challenge infection; these changes were dependent on the primary treatment. Taken together, bacteria-induced systemic immunity in barley may be mediated in part by WRKY and ERF-like transcription factors possibly facilitating transcriptional reprogramming to potentiate immunity.

2014-11-24 | E-MTAB-3056 | biostudies-arrayexpress

Barley Systemic Immunity: Dataset Local and Systemic

2014-11-24 | E-MTAB-3063 | biostudies-arrayexpress

Host transcriptional reprogramming in response to the rice bacterial blight pathogen Xanthomonas oryzae pv. oryzae strain BLS354

Project description:We performed RNA-Seq of leaves of Oryza sativa L. ssp. japonica cv. Nipponbare 48 hours after inoculation with Xanthomonas oryzae pv. oryzicola strain BLS354, the causal agent of bacterial leaf streak. Results provide insight into the molecular basis of bacterial leaf streak, particularly the role of transcription activator-like effectors in the disease. Examination of mRNA levels in Oryza sativa L. ssp. japonica cv. Nipponbare leaves at 48 hours after inoculation with Xanthomonas oryzae pv. oryzicola strain BLS354 with three biological replicates compared to three replicates of mock inoculated O. sativa as the control.

2016-07-07 | E-GEOD-75131 | biostudies-arrayexpress

Host transcriptional reprogramming across diverse strains of the rice bacterial leaf streak pathogen Xanthomonas oryzae pv.oryzicola

Project description:We performed RNA-Seq of leaves of Oryza sativa L. ssp. japonica cv. Nipponbare 48 hours after inoculation with 10 geographically diverse strains of Xanthomonas oryzae pv. oryzicola, the causal agent of bacterial leaf streak. Results provide insight into the molecular basis of bacterial leaf streak, particularly the role of transcription activator-like effectors in the disease. Examination of mRNA levels in Oryza sativa L. ssp. japonica cv. Nipponbare leaves at 48 hours after inoculation with 10 strains of Xanthomonas oryzae pv.oryzicola with three biological replicates for each compared to three replicates of mock inoculated O sativa as the control

2015-05-01 | E-GEOD-67588 | biostudies-arrayexpress

Human nasal epithelial cell, Influenza virus, iTRAQ

Project description:Few studies have examined the local surface remodeling of primary human nasal epithelial cells (HNECs) during viral infection. Hence, the full range of upregulated adhesion molecules during respiratory viral infections that facilitate bacterial attachment and entry remain unknown. Accordingly, the current study provides a comprehensive view of HNEC responses to influenza virus pH1N1 infection, via global proteome profiling of uninfected (Mock, n = 4) and influenza-infected (Virus-only, n = 4) HNECs with isobaric tags using relative and absolute quantitation (iTRAQ) technique. A total of 3583 proteins were detected, 89 of which were significantly increased (52 proteins) or decreased (37 proteins) in the virus-infected HNECs compared to mock-infected controls (p < 0.05).

2024-05-08 | PXD042618 | Pride

Salivary cytokine alterations in HIV infection part 1

2011-09-09 | GSE24037 | GEO

Mock or latently infected KSHV cells (BCBL, SLK and HFF)

Project description:[original title] Mock or latently infected KSHV cells (BCBL, SLK and HFF) vs common reference (mixture of RNA from both infected and uninfected cells). Expression profiling of latently infected cells using a custom tiling microarray. SLK and HFF cells were infected and selected for rKSHV.219. Mock infected SLK and HFF cells served as controls for each of these two stably infected cells, respectively. BJAB cells served as uninfected controls for the BCBL-1 cells. Biological replicates were harvested and analyzed.

2010-03-24 | GSE20443 | GEO

Extensive reprogramming of lipid metabolism in the liver during West Nile virus infection in mice highlights novel aspects of disease pathophysiology [liver]

Project description:To investigate the in vivo metabolic changes during WNV infection in a mouse model, we infected mice with WNV NY99 to compare to uninfected (mock) mice. We then performed gene expression profiling analysis using data obtained from RNA-seq from infected vs uninfected mice and treated mice.

2025-07-09 | GSE242980 | GEO

Extensive reprogramming of lipid metabolism in the liver during West Nile virus infection in mice highlights novel aspects of disease pathophysiology [brain]

Project description:To investigate the in vivo lipid metabolism changes during WNV infection in a mouse model, we infected mice with WNV NY99 to compare to uninfected (mock) mice. We then performed gene expression profiling analysis using data obtained from RNA-seq from infected vs uninfected mice and treated mice.

2025-07-09 | GSE242979 | GEO

Salivary cytokine alterations in HIV infection part 1

Project description:Systemic and local (oral mucosal) immune responses in acutely infected HIV individuals before the initiation of HAART have not been well characterized. Protein microarrays were used to analyze saliva and plasma from HIV infected and HIV uninfected subjects to identify new biomarkers for HIV disease progression and pathogenesis. A 507 protein microarray was employed to provide a broad view of cytokines and chemokines in saliva and plasma in acutely HIV infected subjects as compared to uninfected subjects. A custom array derived from the initial results was refined to highlight those molecules with significant change relative to control subjects indicating the potential for biological impact.

2011-09-08 | E-GEOD-24037 | 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