Search   for 
Find Your Gene ·  Publications ·  Tools ·  Gene List Suite ·  Expression Atlases ·  About PLEXdb ·  Feedback
Login ID:
Password:
Plants
Arabidopsis
Barley
Brachypodium
Citrus
Cotton
Grape
Maize
Medicago
Poplar
Rice
Soybean
Sugarcane
Tomato
Wheat
Pathogens & Symbionts
Search Experiments
Download Data
Gene List Suite
Tools
Your Account
Documentation
News
Personnel
Links
 Data Release Policy 
PLEXdb is committed to making expression data publicly available to researchers world-wide...
complete policy
 

Browse AraPLEX Experiment Data

Choose an experiment:
Differential gene expression profiling from Arabidopsis thaliana wild type (Columbia-0) and lht1 mutant leaves
Yangdou Wei, University of Saskatchewan, Department of Biology (yangdou.wei@usask.ca)
Experiment design (12 hybridizations)
strain
•Wildtype •Mutant
pathogen inoculation
•Pst •Untreated

This experiment has been imported by PLEXdb from NCBI GEO (GSE19109) Series_summary: We found that amino acid transporter LHT1 was required fo...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

Show
Experiment Name: Differential gene expression profiling from Arabidopsis thaliana wild type (Columbia-0) and lht1 mutant leaves
Accession No: AT93
Microarray: ATH1-121501
Visibility: public
Experiment Type:
Experiment Factor(s):
strain
•Wildtype   •Mutant
pathogen inoculation
•Pst   •Untreated
Quality Control: biological replicates
Treatment summary:
 strain  pathogen inoculation  # replicates
 Wildtype  Pst  3
 Wildtype  Untreated  3
 Mutant  Pst  3
 Mutant  Untreated  3
Total hybridizations: 12
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE19109)

Series_summary:
We found that amino acid transporter LHT1 was required for negatively regulating plant defence responses in addition to its physiological role in development and growth. In order to identify which defense pathways were involved in this process, we compared the expression profiles between wild type and lht1 mutant leaves without or with infection by Pseudomonas syringae pv. tomato DC3000 (Pst). In the lht1 mutant, except the changes in nitrogen metabolism-, cellular redox-, and photorespiration-associated gene expressions, the most drastic upregulations were found in the salicylic acid pathway-associated defense genes.

Series_overall_design:
We used microarrays to detail the global profile of gene expression after knocking out the LHT1 gene and identified distinct classes of up- and down-regulated genes associated with the lht1 mutation.
The Arabidopsis plants grown for 3 weeks in short day condition, without or with 48hr pathogen infection, were selected for RNA extraction and hybridization on Affymetrix microarrays. We sought to obtain homogeneous populations of leaves in order to better represent expression profiles. To that end, we hand-selected the leaves at the same stages (fully expanded) and mixed them together for each biological replicate.
Publication: none
Created: 2010-09-21 11:37:13
Last Update: 2010-09-21 12:02:09
Released: 2010-09-28
GEO Accession GSE19109
Submitter: PLEXdb Curator
Name: Yangdou Wei
Institution: University of Saskatchewan, Department of Biology
Head of Laboratory: --
email(s):
Homepage:

 
Copyright@2001-2013 The PLEXdb Group
All rights reserved.

For problems with the webpages contact PLEXdb webmasters