Comment[ArrayExpressAccession]	E-GEOD-41963
MAGE-TAB Version	1.1						
Public Release Date	2013-09-23
Investigation Title	Gene expression analysis in wild-type and OsGRX8 overexpression line in response to various treatments						
Comment[Submitted Name]	Gene expression analysis in wild-type and OsGRX8 overexpression line in response to various treatments
Experiment Description	Glutaredoxins (GRXs) are the ubiquitous oxidoreductase enzymes, which play important role in defense against various stresses. To analyze the function of a CC-type rice GRX gene, OsGRX8, we overexpressed it into Arabidopsis constitutively. The physiological analyses revealed that overexpression of GRX gene enhanced abiotic stress tolerance in transgenic plants as compared to wild-type. We used microarrays to study the global effect of overexpression of OsGRX8 in Arabidopsis under control and various treatments. Wild-type and transgenic Arabidopsis seedlings were grown on MS medium for 14-days in a culture room with a daily photoperiodic cycle of 16h light and 8h dark. Seedlings were incubated in water (control) or 100 µM solution of indole-3-acetic acid (auxin, IAA), 200 mM sodium chloride (salt, NaCl) and 25 µM solution of methyl viologen (MV)for 3h. The 500 ng of total RNA sample isolated from each tissue sample was processed for microarray analysis according to Affymetrix protocol. Two biological replicates for each sample (control, IAA, NaCl and MV) of wild-type and GRX overexpression line were used for microarray analysis.						
Term Source Name	ArrayExpress	EFO
Term Source File	http://www.ebi.ac.uk/arrayexpress/	http://www.ebi.ac.uk/efo/efo.owl					
Person Last Name	Jain	Raghvendra	Pushp	Mukesh			
Person First Name	Mukesh	Sharma	Priya	Jain			
Person Email	mjain@nipgr.ac.in						
Person Affiliation	National Institute of Plant Genome Research (NIPGR)						
Person Phone	91-11-26735182						
Person Address	National Institute of Plant Genome Research (NIPGR), Aruna Asaf Ali Marg, JNU Campus, New Delhi, New Delhi, India						
Person Roles	submitter						
Protocol Name	P-GSE41963-1	P-GSE41963-5	P-GSE41963-6	P-GSE41963-2	P-GSE41963-3	P-GSE41963-4	P-GSE41963-7
Protocol Description	CEL files wer imported into Genespring software and probe summarization and normalization was performed using RMA algorithm ID_REF =  VALUE = RMA signal intensity	Biotinylated cRNA were prepared according to the standard Affymetrix protocol	Following fragmentation, 10 microgram of cRNA were hybridized for 16 h at 45 degree C on the rice Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450	Seedlings were incubated in water (control) or 100 µM solution of indole-3-acetic acid (auxin, IAA), 200 mM sodium chloride (salt, NaCl) and 25 µM solution of methyl viologen (MV)for 3h	Wild-type and transgenic Arabidopsis seedlings were grown on MS medium for 14-days in a culture room with a daily photoperiodic cycle of 16h light and 8h dark	Total RNA was extracted using TRI reagent according to the manufacturer's instructions	GeneChip were scanned using Affymetrix scanner
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	sample treatment protocol	growth protocol	nucleic acid extraction protocol	array scanning protocol
Experimental Factor Name	COMPOUND	GENOTYPE					
Experimental Factor Type	compound	genotype					
Comment[SecondaryAccession]	GSE41963						
Comment[GEOReleaseDate]	2013-09-23						
Comment[ArrayExpressSubmissionDate]	2012-11-01						
Comment[GEOLastUpdateDate]	2013-09-26						
Comment[AEExperimentType]	transcription profiling by array						
SDRF File	E-GEOD-41963.sdrf.txt