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Series GSE12043 Query DataSets for GSE12043
Status Public on Oct 10, 2008
Title Decapped mRNAs during Arabidopsis Early Flower Development
Organism Arabidopsis thaliana
Experiment type Expression profiling by array
Summary The composition of the transcriptome is regulated by both mRNA synthesis and degradation. One route for mRNA decay is through 5’ decapping, which can be initiated by decapping enzymes and small RNAs. Although decapped RNAs are an important intermediate for mRNA decay, their identity and abundance have never been studied on a large scale. Here we present an experimental method for transcriptome-wide profiling of decapped mRNAs. We applied the method to study the prevalence of decapped transcripts during the early stages of Arabidopsis thaliana flower development. Decapped transcripts were identified for the majority of expressed genes, although at different levels. By comparing decapped RNA levels with steady-state overall transcript levels, our study provides evidence for widespread decapping-mediated mRNA degradation control in numerous biological processes and for genes of varied molecular functions, implying that mRNA decapping is a dynamically regulated process. Sequence analyses identified structural features of transcripts and cis-elements that were associated with levels of decapping.
 
Overall design Four sets of biologically independent tissue samples were collect 0,1,2,3,4, and 5 days after activation of the AP1-GR fusion protein. Decapped mRNA and total mRNA of each time point from each set were co-hybridized to micoarrays. Dyes used for labeling the RNA populations derived from the individual samples were switched in the replicate experiments to reduce dye-related artefacts.
 
Contributor(s) Jiao Y, Riechmann JL, Meyerowitz EM
Citation(s) 18952771
Submission date Jul 08, 2008
Last update date Jun 14, 2013
Contact name Yuling Jiao
Organization name California Institute of Technology
Department Biology
Lab Meyerowitz
Street address 1200 E California Blvd
City Pasadena
State/province CA
ZIP/Postal code 91125
Country USA
 
Platforms (1)
GPL5762 Meyerowitz Lab Arabidopsis Operon Array Version 2
Samples (24)
GSM304324 Decapped mRNAs during Arabidopsis Early Flower Development - 0 day, set1
GSM304325 Decapped mRNAs during Arabidopsis Early Flower Development - 0 day, set2
GSM304326 Decapped mRNAs during Arabidopsis Early Flower Development - 0 day, set3
Relations
BioProject PRJNA113369

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

Supplementary file Size Download File type/resource
GSE12043_RAW.tar 75.1 Mb (http)(custom) TAR (of GPR)
Processed data included within Sample table
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