FIGURE 3.

Msc1 and Swr1 are required for H2A.Z^Pht1 incorporation into chromatin. A, scatter plots of Pht1-Myc ChIP-chip analysis. Log values of Pht1 ChIP and WCE signals for each probe were plotted against each other. wt, wild type. B, H2A.Z^Pht1 is enriched at gene promoters. The 42,708 probes are divided into three categories: open reading frame (ORF; coding region), promoter (within 500 bp upstream of the coding region), and intergenic (noncoding regions that do not belong to the promoter category). Pht1-enriched represents the top 5% (2,134) of probes that are enriched for Pht1, all of which have enrichment values of >3-fold. C, H2A.Z^Pht1 is enriched at gene promoters. Left panel, example of H2A.Z^Pht1 ChIP-chip analysis across a 10-kb region that includes vid21⁺. Gene coding regions are indicated on top, and the positions of PCR fragments used in the calculation are shown as short bars. Middle panel, quantification of H2A.Z^Pht1 enrichment at vid21⁺ by real-time PCR. Right panels, quantification of H2A.Z^Pht1 enrichment at the vid21⁺ promoter by competitive PCR. -Fold enrichment is shown below each lane. D, Msc1 is required for targeting of Swr1 to the vid21⁺ promoter. Quantification by both real-time PCR and competitive PCR is shown. E, Msc1 does not affect Swr1 protein levels. Cell extracts prepared from the indicated strains were subjected to Western blot analysis with anti-Myc antibody.