Genomics

Dataset Information

35

Down-regulation of OsSRT1 induces DNA fragmentation and cell death in rice


ABSTRACT: 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 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%).

INSTRUMENT(S): [Rice] Affymetrix Rice Genome Array

SUBMITTER: Qianwen Sun  

PROVIDER: GSE7197 | GEO | 2007-04-04

SECONDARY ACCESSION(S): PRJNA98243

REPOSITORIES: GEO

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Publications

Down-regulation of a SILENT INFORMATION REGULATOR2-related histone deacetylase gene, OsSRT1, induces DNA fragmentation and cell death in rice.

Huang Limin L   Sun Qianwen Q   Qin Fujun F   Li Chen C   Zhao Yu Y   Zhou Dao-Xiu DX  

Plant physiology 20070427 3


The SILENT INFORMATION REGULATOR2 (SIR2) family proteins are NAD(+)-dependent histone deacetylases. Sir2 is involved in chromatin silencing at the mating-type loci, rDNA, and telomeres in yeast and is associated with lifespan extension in yeast, worms, and flies, but also in a broader range of additional functions. In this work, we investigated the role of OsSRT1, one of the two SIR2-related genes found in rice (Oryza sativa). We show that OsSRT1 is a widely expressed nuclear protein with higher  ...[more]

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