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Browse RicePLEX Experiment Data

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Transcript Profiling of the Aerobic and Anoxic Rice Coleoptile
Pierdomenico,,Perata, Sant'Anna School of Advanced Studies, Pisa, Italy (p.perata@sssup.it)
Experiment design (4 hybridizations)
stress condition
•aerobic_control •anoxic

This experiment has been imported by PLEXdb from NCBI GEO (GSE6908)

Series_summary:
Rice (Oryza sativa L.) seeds can germinate in com...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: Transcript Profiling of the Aerobic and Anoxic Rice Coleoptile
Accession No: OS14
Microarray: Rice57k
Visibility: public
Experiment Type:
Experiment Factor(s):
stress condition
•aerobic_control   •anoxic
Quality Control: biological replicates
Treatment summary:
 stress condition  # replicates
 aerobic_control  2
 anoxic  2
Total hybridizations: 4
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE6908)

Series_summary:
Rice (Oryza sativa L.) seeds can germinate in complete absence of oxygen. Under anoxia, the rice coleoptile elongates, reaching a length greater than that of the aerobic one. In this series, we compare the transcriptome of rice coleoptiles grown under aerobic and anaerobic conditions.
Lasanthi-Kudahettige, R, et. al. Plant Physiology (2007). Transcript Profiling of the Anoxic Rice Coleoptile.

Keywords: stress response

Series_overall_design:
Rice seeds were germinated in the dark, at 28°C for four days. The coleoptiles were surgically dissected, the primary leaf was removed from the aerobic coleoptiles (anoxic coleoptiles do not contain the primary leaf), RNA was extracted and used for the microarray experiment. An enclosed anaerobic work station (Anaerobic System model 1025; Forma Scientific, Marietta, OH) was used to provide an oxygen-free (anoxia)environment for seed germination. This chamber uses palladium catalyst wafers and desiccant wafers to maintain strict anaerobiosis to less than 10 µg mL–1 O2 (according to the specifications provided by the manufacturer). High-purity N2 was used for purging the chamber initially and the working anaerobic gas mixture was N2:H2 proportioned at 90:10.
Publication: 'Transcript profiling of the anoxic rice coleoptile.', Lasanthi-Kudahettige R, Magneschi L, Loreti E, Gonzali S et al.
Plant Physiol 2007 May;144(1):218-31
pubmed: 17369434
Created: 2009-05-05 14:22:21
Last Update: 2009-05-05 14:33:03
GEO Accession GSE6908
Submitter: PLEXdb Curator
Name: Pierdomenico,,Perata
Institution: Sant'Anna School of Advanced Studies, Pisa, Italy
Head of Laboratory: --
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