Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Time-resolved transcriptome analysis with genetic perturbations reveals a critical time window for effective plant immunity

ABSTRACT: Pathogen invasion in plants is associated with transcriptional reprogramming. Enigmatically, plants induce similar transcriptome responses upon infection by virulent or avirulent pathogens. This renders the importance of transcriptional reprogramming for immunity obscure. Here, using RNA-seq, we generate time-series transcriptome data coupled with genetic perturbations to reveal temporal dynamics upon infection by virulent or avirulent strains of a bacterial pathogen, Pseudomonas syringae, in Arabidopsis thaliana. Fast and sustained transcriptional reprogramming occurs upon infection with avirulent strains while virulent strain infection leads to a slower response with comparable gene expression patterns and magnitudes. Importantly, transcriptome analysis of resistant and susceptible mutants responding to avirulent strains links delayed transcriptional reprogramming to compromised immunity. Taken together, our results pinpoint the early critical time window of transcriptional reprogramming for establishing effective immunity against the bacterial pathogen.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE88798 | GEO | 2017/12/12

SECONDARY ACCESSION(S): PRJNA348676

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

The redoxproteome: protein nitrosylation and glutathionylation as regulatory mechanisms during plant defense responses to pathogens

Project description:The present work is directed at studying changes at the proteome level in Arabidopsis thaliana leaves in response to Pseudomonas syringae virulent (Pst) and avirulent (Pst avrRpt2) strains. Arabidopsis leaves were sampled from challenged plants at 4, 8 and 24 hours post inoculation. Proteins were TCA-acetone-phenol extracted and subjected to 2-DE (5-8 pH range) and MS/MS (MALDI-TOF-TOF) analysis. Out of 800 matched spots on each of the 36 gels analysed, 147 spots were either absent in at least one of the conditions studied (time or treatments; qualitative variable spots) or differentially accumulated between time and treatments (quantitative variable spots). Out of the 24 proteins successfully identified over TAIR10 database, 23 have not been reported previously in similar proteomics studies of the Arabidopsis thaliana-Pseudomonas syringae interaction. The exhaustive statistical analysis performed, including principal component and heat map, showed that 24 hours post inoculation can clearly discriminate the challenged plants from the control. The protein change occurred early (4 hours post inoculation) following the virulent pathogen infection, whereas the change occurred later (24 hours post inoculation) following the avirulent pathogen inoculation. Concerning the variable proteins, three behavioural groups can be observed: group 1 (common protein changes in response to virulent and avirulent pathogen infection), group 2 (protein changes in response to virulent pathogen infection) and group 3 (protein changes in response to avirulent pathogen infection). Differential identified proteins following the pathogen infection belonged to different groups including those of oxidative stress defence, enzymes of metabolic pathways and molecular chaperones.

2011-10-19 | PRD000569 | Pride

Hijacking of the macrophage epigenetic machinery involving H3K4 trimethylation and lncRNA HOTAIR, facilitates survival of Mycobacterium tuberculosis

Project description:Genome wide differential association of H3K4me3 in Human macrophages after infection with both virulent and avirulent strains of Mtb

2018-07-10 | GSE116769 | GEO

Transcription analysis of the responses of porcine heart to Erysipelothrix rhusiopathiae

Project description:Erysipelothrix rhusiopathiae is generally regarded as an opportunistic pathogen that causes erysipelas in swine and other diseases in several mammalian and avian species.This study aimed to perform a whole-genomic analysis of the transcriptional responses of a pig heart to virulent and avirulent strains and PBS by using Affymetrix Porcine Gene 1.0 ST Microarray to elucidate the immune responses of hosts to E. rhusiopathiae.

2017-09-15 | GSE92326 | GEO

Transcription profiling of C. elegans after infection with Microbacterium nematophilum

Project description:Genomic response of C. elegans after infection with Microbacterium nematophilum.<br><br>The interaction between the nematode Caenorhabditis elegans and a Gram-positive bacterial pathogen, Microbacterium nematophilum, provides a model for an innate immune response in nematodes. This pathogen adheres to the rectal and post-anal cuticle of the worm, causing slowed growth, constipation, and a defensive swelling response of rectal hypodermal cells. To explore the genomic responses that the worm activates after pathogenic attack we used microarray analysis of transcriptional changes induced after 6 hr infection, comparing virulent with avirulent infection.

2005-01-01 | E-MEXP-696 | biostudies-arrayexpress

Effect of treatment with H2O2 or DPTA-NONOate on E. histolytica

Project description:E. histolytica of strains HM1:IMSS (virulent) and Rahman (avirulent) were examined for response to oxidative and nitrosative stress.

2008-10-01 | GSE11811 | GEO

Zymoseptoria tritici suppresses the host immune response and facilitates the success of avirulent strains in mixed infections

Project description:Wheat (Chisenese Spring) transcriptome analyses during single and mixed infections by an avirulent and a virulent strains of Z. tritici.

2023-05-15 | GSE232243 | GEO

Global gene expression profiling of lung-resident CD8+ T cells from uninfected, Mtb-infected and BCG-infected mice

Project description:Transcriptomics on lung-resident CD8+ T cells reveals how global gene expression patterns diverge over the course of infection with virulent Mtb and non-pathogenic BCG strains. CD8+ T cells from Mtb-infected animals respond with a stronger activation profile than cells from BCG-infected animals, promoting a more inflammatory gene expression profile that contributes to increased indicators of T cell exhaustion, apoptosis and metabolic reprogramming. These data provide new insights into the differential regulation of T cell immunity in virulent and non-virulent Mycobacterial infections.

2019-12-10 | GSE117330 | GEO

Whole blood transcriptome during acute phase of infecion in avirulent and virulent Plasmodium chabaudi chabaudi infection

Project description:Analysis of blood samples taken throughout the acute phase of infection from mice infected with avirulent P. chabaudi AS strain or virulent CB strain The influence of parasite genetic factors on immune responses and development of severe pathology of malaria is largely unknown. In this study, we performed genome-wide transcriptomic profiling of whole blood during blood-stage infections of two strains of the rodent malaria parasite Plasmodium chabaudi that differ in virulence. We identified several transcriptomic signatures associated with the virulent infection, including signatures for lung inflammation, stronger and prolonged anemia and platelet aggregation. The latter two signatures were detected prior to pathology. The anemia signature indicated deregulation of host erythropoiesis, and the lung inflammation signature was linked to increased neutrophil infiltration, more cell death and greater parasite sequestration in the lungs. This comparative whole-blood transcriptomics profiling of virulent and avirulent malaria infections shows the validity of this approach to inform severity of malarial infection and provide insight into pathogenic mechanisms.

2017-02-01 | GSE93631 | GEO

Identification of differential circRNA expression profiles in human macrophages induced by viru-lent and avirulent Mycobacterium tuberculosis strains

Project description:Tuberculosis is a chronic infectious disease caused by Mycobacterium tuberculosis (M.tb) infection, remains a leading cause of morbidity and mortality world-wide. Circular RNAs are non-coding RNAs with diverse functions. However, most M.tb related circRNAs remain undiscovered. We used circRNA-seq technology to sequence the THP-1 cells infected with virulent and avirulent M.tb strains for 12 h.

2024-04-10 | GSE248244 | GEO

affy_riz_2011_7-: Transcriptomic analysis of rice leaves challenged with virulent and avirulent Xoo strains

Project description:affy_riz_2011_7 - affy_riz_2011_7 - The Bacterial Leaf Blight disease of rice is due to Xanthomonas oryzae pv. oryzae. As for many pathogenic bacteria, it relies on a type 3 secretion system (TTSS) that is devoted to the injection of type 3 effectors (T3Es) into the eukaryotic host cell. These proteins are meant to suppress host basal defense responses and/or mimic some host regulatory function promoting bacterial survey in the plant. During an incompatible interaction, T3Es may act as Avr proteins and stimulate Effector-Triggered-Immunity. We aim at evaluating the transcriptomic response of rice leaves challenged with avirulent strains of Xoo BAI3 and MAI1 on resistant lines IR64 and IRBB4 versus the reference susceptible rice line Nipponbare. In addition, we investigated the transcriptomic response of rice leaves upon inoculation of an XoohrcC mutant strain affected in the production of a functional TTSS.-The goal of the experiment is to characterize the rice leaf transcriptome response, upon the inoculation of susceptible and resistant rice leaves 24 hours post-infection. To that end, the experimental design includes the inoculation of susceptible Nipponbare rice leaves with Xoo strains BAI3 (race A1) and MAI1 (race A3), that will be compared to the response of resistant lines IRBB4 and IR64 rice lines. In addition, Nipponbare rice leaves will also be challenged with the BAI3hrcC mutant that is affected in the production of a functional TTSS. 18 arrays - rice; avirulent vs virulent

2012-10-15 | E-GEOD-34192 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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