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Down-regulation of OsSRT1 induces DNA fragmentation and cell death in rice
Qianwen,,Sun, Huazhong Agriculture University, Wuhan, China (sunqianwen@webmail.hzau.edu.cn)
Experiment design (6 hybridizations)
RNAi_transgenic
•WT_control •RNAi_transgenic

This experiment has been imported by PLEXdb from NCBI GEO (GSE7197)

Series_summary:
In order to study the physiological function of O...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: Down-regulation of OsSRT1 induces DNA fragmentation and cell death in rice
Accession No: OS15
Microarray: Rice57k
Visibility: public
Experiment Type:
Experiment Factor(s):
RNAi_transgenic
•WT_control   •RNAi_transgenic
Quality Control: biological replicates
Treatment summary:
 RNAi_transgenic  # replicates
 WT_control  3
 RNAi_transgenic  3
Total hybridizations: 6
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE7197)

Series_summary:
In order to study the physiological function of OsSRT1, a 412 bp segment of the 3’-untranslated region of OsSRT1, which was not conserved with OsSRT2, was inserted in inverted repeats to build a construct for RNA interference (RNAi). The construct was used to transform an indica rice variety (Minghui63).To study whether the down-regulation of OsSRT1 affected gene expression, we compared the transcripts of the RNAi to the wild type plants by microarray analysis (Affymetrix). RNAs were isolated from young leaves of 11 day-old plants (before appearance of lesions in the RNAi plants). Affymetrix GeneChip® Rice Genome Array were performed. Data was analyzed with SAM excel add-in and in-house perl scripts.Analysis of data from three biological repeats revealed that 521 genes are up-regulated, and 213 genes are down-regulated (with q – value at 5%).

Keywords: expression analysis

Series_overall_design:
In order to study the physiological function of OsSRT1, a 412 bp segment of the 3’-untranslated region of OsSRT1, which was not conserved with OsSRT2, was inserted in inverted repeats to build a construct for RNA interference (RNAi). The construct was used to transform an indica rice variety (Minghui63).To study whether the down-regulation of OsSRT1 affected gene expression, we compared the transcripts of the RNAi to the wild type plants by microarray analysis (Affymetrix). RNAs were isolated from young leaves of 11 day-old plants (before appearance of lesions in the RNAi plants). Affymetrix GeneChip® Rice Genome Array were performed. Data was analyzed with SAM excel add-in and in-house perl scripts.Analysis of data from three biological repeats revealed that 521 genes are up-regulated, and 213 genes are down-regulated (with q – value at 5%).
Publication: 'Down-regulation of a SILENT INFORMATION REGULATOR2-related histone deacetylase gene, OsSRT1, induces DNA fragmentation and cell death in rice.', Huang L, Sun Q, Qin F, Li C et al
Plant Physiol 2007 Jul;144(3):1508-19
pubmed: 17468215
Created: 2009-05-05 14:37:36
Last Update: 2009-05-05 14:49:55
GEO Accession GSE7197
Submitter: PLEXdb Curator
Name: Qianwen,,Sun
Institution: Huazhong Agriculture University, Wuhan, China
Head of Laboratory: --
email(s):
Homepage:

 
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