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Browse RicePLEX Experiment Data

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Microarray data from aerial tissue of submergence tolerant M202(Sub1) and intolerant M202
Takeshi Fukao, University of California, Department of Botany and Plant Sciences, Riverside, California (fukao@ucr.edu,serres@ucr.edu)
Experiment design (8 hybridizations)
genotype
•M202 •M202(Sub1)
stress condition
•control •submerged

This experiment has been imported by PLEXdb from NCBI GEO (GSE18930) Series_summary: An ERF transcription factor, Submergence-1A (Sub1A), dram...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: Microarray data from aerial tissue of submergence tolerant M202(Sub1) and intolerant M202
Accession No: OS52
Microarray: Rice57k
Visibility: public
Experiment Type:
Experiment Factor(s):
genotype
•M202   •M202(Sub1)
stress condition
•control   •submerged
Quality Control: biological replicates
Treatment summary:
 genotype  stress condition  # replicates
 M202  control  2
 M202  submerged  2
 M202(Sub1)  control  2
 M202(Sub1)  submerged  2
Total hybridizations: 8
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE18930)

Series_summary:
An ERF transcription factor, Submergence-1A (Sub1A), dramatically enhances the tolerance to prolonged submergence in rice. For instance, rice accessions which lack Sub1A (e.g. M202) die within 7-10 d of complete submergence. By contrast, genotypes which posses Sub1A (e.g. M202(Sub1)) can endure submergence stress for 14 d. In this study, the two near isogenic lines with and without Sub1A were subjected to microarray analysis using Affymetrix Gene Chip technology. This analysis provided beneficial information to elucidate general response to submergence stress and to estimate Sub1A-dependent defense response to the stress at mRNA accumulation level.

Series_overall_design:
Aerial tissue of 14-d-old plants which were submerged for 24 h were subjected to RNA extraction and hybridization on Affymetrix microarrays. Non-submerged plants were used as control. Two independent biological replicates were analyzed for each treatment/genotype.
Publication: 'Cross-kingdom comparison of transcriptomic adjustments to low-oxygen stress highlights conserved and plant-specific responses.', Mustroph A, Lee SC, Oosumi T, Zanetti ME, Yang H, Ma K, Yaghoubi-Masihi A, Fukao T, Bailey-Serres J.
Plant Physiol 2010 Mar;152(3):1484-500.
pubmed: 20097791
Created: 2011-04-01 11:27:00
Last Update: 2011-04-01 11:40:01
Released: 2011-04-15
GEO Accession GSE18930
Submitter: PLEXdb Curator
Name: Takeshi Fukao
Institution: University of California, Department of Botany and Plant Sciences, Riverside, California
Head of Laboratory: Julia Bailey-Serres
email(s):
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