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Series GSE6908 Query DataSets for GSE6908
Status Public on Mar 19, 2007
Title Transcript Profiling of the Aerobic and Anoxic Rice Coleoptile
Organism Oryza sativa
Experiment type Expression profiling by array
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 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.
 
Contributor(s) Lasanthi-Kudahettige R, Magneschi L, Loreti E, Gonzali S, Licausi F, Novi G, Alpi A, Perata P
Citation(s) 17369434
Submission date Jan 30, 2007
Last update date Dec 27, 2017
Contact name Pierdomenico Perata
E-mail(s) p.perata@sssup.it
Phone +39050881901
Organization name Sant'Anna School of Advanced Studies
Department Institute of Life Sciences
Lab PlantLab
Street address Via Guidiccioni 8-10
City San Giuliano Terme
State/province Pisa
ZIP/Postal code 56010
Country Italy
 
Platforms (1)
GPL2025 [Rice] Affymetrix Rice Genome Array
Samples (4)
GSM159172 Rice coleoptiles, 4 days old, aerobic, replicate N.1 (sample#9)
GSM159173 Rice coleoptiles, 4 days old, aerobic, replicate N.2 (sample#10)
GSM159271 Rice coleoptiles, 4 days old, anoxic, REPLICATE 1 (Sample #11)
Relations
BioProject PRJNA98521

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE6908_RAW.tar 29.7 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file

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