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Browse RicePLEX Experiment Data

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Comparsion of gene expression profile in polaris (pola) mutant lines and its POLARIS (POLA) wild-type at meiotic and ripening stages
Li Juan, Yunnan Agricultural University, Rice Research Institute, Kunming, China (chenlijuan@hotmail.com)
Experiment design (4 hybridizations)
genotype
•wild type •pola mutant •pola RNAi
developmental stage name
•meiotic stage •ripening stage

This experiment has been imported by PLEXdb from NCBI GEO (GSE25693) Series_summary: To assess the role of POLA in relation to ovule developme...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: Comparsion of gene expression profile in polaris (pola) mutant lines and its POLARIS (POLA) wild-type at meiotic and ripening stages
Accession No: OS39
Microarray: Rice57k
Visibility: public
Experiment Type:
Experiment Factor(s):
genotype
•wild type   •pola mutant   •pola RNAi
developmental stage name
•meiotic stage   •ripening stage
Quality Control: biological replicates
Treatment summary:
 genotype  developmental stage name  # replicates
 wild type  meiotic stage  1
 wild type  ripening stage  1
 pola mutant  meiotic stage  1
 pola mutant  ripening stage  0
 pola RNAi  meiotic stage  0
 pola RNAi  ripening stage  1
Total hybridizations: 4
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE25693)

Series_summary:
To assess the role of POLA in relation to ovule development, embryogenesis and endosperm development, we analyzed gene expression profiles by using microarray. Compared to the wild-type plants, several groups of transcription factors in the pola mutant plants and POLA RNAi lines showed up- or down-regulation at meiotic stage and ripening stages of floral development. Specifically, we confirmed significant changes of up- or down-regulation in some genes required for several biological processes, such as biosynthesis, transport, signal transduction, and degeneration of hormone, sugar, starch, fatty and lipid, protein and amino acid. These results supported that MADS protein POLA could function both as a transcriptional activator and repressor, directly and/or indirectly interacted with dozens of potential target genes involved in developmental and hormonal pathways.

Series_overall_design:
To perform microarray analysis, the samples were pooled by 20 panicles from 10 individual plants at meiotic and ripening stage. For meiotic stage RNA sample, panicle of pola mutant were prepared at early to late meiotic stage, and panicle of POLA RNAi line(T2) were prepared at ten to fifteen days after pollination stage for ripening stage RNA sample.

PLEXdb Curator's Note
The factorial structure is not very clear from the original sample descriptions at GEO and is less meaningful with only one replication per treatment.
Publication: none
Created: 2011-03-10 12:10:09
Last Update: 2011-03-10 12:27:23
Released: 2011-03-23
GEO Accession GSE25693
Submitter: PLEXdb Curator
Name: Li Juan
Institution: Yunnan Agricultural University, Rice Research Institute, Kunming, China
Head of Laboratory: --
email(s):
Homepage:

 
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