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| Standard Gene Set Name | KURIHARA_CASIRNA-LOCI_DDC_UP |
| Species | Arabidopsis thaliana |
| Brief Description | Upregulated AGI code genes with casiRNA loci in ddc. (Table S5 PubmedID:18805399) |
| Full Description/Abstract | RNA-directed DNA methylation (RdDM) is a process in which 24 nucleotide (nt) small interfering RNAs (siRNAs) guide de novo cytosine methylation in the homologous genomic DNA region. Of several factors involving 24 nt siRNA accumulation, RNA-dependent RNA polymerase 2 (RDR2) is a key component, because accumulation of 24 nt siRNA disappears in the Arabidopsis rdr2 mutant. Here, we compared expression profiles among wild-type, rdr2-1 and ddc (drm1drm2cmt3), DNA methyltransferase triple mutant, using a whole genome tiling array to identify the candiDate genes directly downregulated by RdDM-related 24 nt siRNAs. Of the transcripts upregulated in the mutants, we searched for those whose coding regions or flanking regions have siRNA-generating loci. We found upregulated expression of 18 transcripts with AGI codes and 19 predicted transcriptional units (TUs) with siRNA loci in both rdr2-1 and ddc. Our study provided important information for understanding the relationship between RdDM and the identified candiDate genes |
| External Pathway ID/Pubmed ID | 18805399 |
| Source | Literature |
| Contributor/Author | Liming Lai and Xijin Ge |
| Organization of contributer | South Dakota State University |
| External URL | NA |