Rice Array Database

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Experiment ID	GSE6908
Experiment Title	Transcript Profiling of the Aerobic and Anoxic Rice Coleoptile
Number of Samples	4
Organism(s)	Oryza sativa
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
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 mLa€“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.
Contributor(s)	Lasanthi-Kudahettige R,Magneschi L,Loreti E,Gonzali S,Licausi F,Novi G,Alpi A,Perata P
Citation(s)	17369434

Submission date	30-Jan-07
Contact name	Pierdomenico Perata
E-mail(s)	p.perata@sssup.it
Phone	390502216541
Fax	390502216532
URL	http://www.sssup.it/perata
Organization name	Sant Anna School of Advanced Studies
Department	Crop Physiology Center
Lab	Plant Physiology
Street address	Via Mariscoglio 34
City	Pisa
State/province
ZIP/Postal code	56124
Country	Italy

	ID	Platform	Sample Name
1.	GSM159172	Affymetrix	Rice coleoptiles, 4 days old, aerobic, replicate N.1 (sample#9)
2.	GSM159173	Affymetrix	Rice coleoptiles, 4 days old, aerobic, replicate N.2 (sample#10)
3.	GSM159271	Affymetrix	Rice coleoptiles, 4 days old, anoxic, REPLICATE 1 (Sample #11)
4.	GSM159272	Affymetrix	Rice coleoptiles, 4 days old, anoxic, REPLICATE 2 (Sample #12)