Fig 1.

LANA binding activity on KSHV genome. The UCSC genome browser was used to map LANA ChIP-Seq enrichment peaks to the BCBL1 KSHV genome (GenBank accession no. HQ404500) with 35 copies of terminal repeat (TR) sequence attached. (A) The peaks represent an average of the results of two independent ChIP-Seq replicates. Zoomed-in views of the latency cluster region and TR region are shown in panels B and C, respectively. ORF50 and LANA transcripts are indicated as colored arrows in panels A and B. LANA and K14 genes are indicated in panel B. The LANA binding peak at the LANA promoter was marked with a red asterisk. The long unique region (LUR) and TR are indicated in panel C. The annealing locations of the primers for ChIP-PCR validation are indicated in panel C, including region 1 (R1), region 2 (R2), region 3 (R3), and LANA binding sites 1 and 2 (LBS1/2). LANA (black bars) or control IgG (gray bars) were assayed by ChIP and quantitative PCR in BCBL1 cells for DNA binding at the LANA promoter compared to LBS1/2 (D) or with R2 (E). (F) LANA (black bars) or control IgG (gray bars) were assayed by ChIP in BCBL1 cells for DNA at R1, R2, R3, or LBS1/2. (G) EMSA analysis of ³²P-labeled probes containing R2, R3, or LBS1/2.