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Binding of CCCTC-binding factor in vivo to the region located between Rep* and C-promoter of Epstein-Barr virus is unaffected by CpG methylation and does not correlate with Cp activity

¹ National Center for Epidemiology;
² Department of Microbiology and Hygiene, University of Regensburg;
³ Microbiological Research Group, National Center for Epidemiology

⁴ E-mail: saladili{at}yahoo.com

We studied the binding of the insulator protein CTCF (CCCTC-binding factor) to the region located between Rep* and C-promoter (Cp) of Epstein-Barr virus (EBV) using chromatin immunoprecipitation and in vivo footprinting. CTCF binding was independent of Cp usage in cell lines corresponding to the major EBV latency types. Bisulfite-sequencing and electrophoretic mobility shift assay (using methylated and unmethylated probes) revealed that CTCF binding was insufficient to induce local CpG demethylation in certain cell lines and was unaffected by CpG methylation at the region between Rep* and Cp. CTCF binding to the latency promoter Qp did not correlate with Qp activity, either.

Received 15 September 2008; accepted 14 January 2009.