ZFP-1, dsRNA, and siRNAs localize to the promoter of pdk-1.

(A) A screen shot of the pdk-1 locus generated using the UCSC browser and indicating ZFP-1 localization peaks (ChIP/chip modENCODE data), cloned endo-siRNAs from [38] - (WT1) and [37] - (WT2), and promoter regions 1 and 2 with detected bi-directional transcription shown in (D). Antisense siRNAs are indicated in red, sense siRNAs in blue. (B) ZFP-1 ChIP/PCR with antibodies recognizing the C-terminus of the protein used for ChIP/chip shown in (A) in wild type and zfp-1(ok554) demonstrating DNA enrichment in IP relative to input by qPCR on the promoters – “P” and coding regions – “C” of the genes shown. Results of two biological replicas are shown; error bars represent Standard deviation. (C) Venn diagram showing statistically significant overlap between ZFP-1 target genes identified by ChIP/chip, where the ZFP-1 peak was found in the 1,500bp promoter window, and genes upregulated in rde-4(ne299) from [19]. (D) RT-PCR detecting transcription from both (−) and (+) DNA strands at indicated regions of the pdk-1 promoter. (E) RT-qPCR measuring expression from the region 1 in the pdk-1 promoter. The average of four biological replicas is shown, error bars represent Standard deviation, P