Epstein-Barr virus (EBV), a human gammaherpesvirus, is largely B lymphotropic and possesses a unique set of latent cycle genes whose coordinate expression can drive the proliferation of latently infected B cells. This process can be studied in vitro, where experimental infection of resting B cells leads to the outgrowth of virus-transformed lymphoblastoid cell lines (LCLs) expressing the full range of EBV latent proteins; these include the nuclear antigens EBNA1, -2, -3A, -3B, -3C, and -LP and the latent membrane proteins LMP1, -2A, and -2B (25, 42). Immediately postinfection, viral transcription initiates from the latent cycle promoter Wp. The long primary transcripts thus produced are capable of generating all six EBNA mRNAs but appear to be preferentially, though not exclusively, processed to mRNAs encoding the EBNA2 and EBNA-LP proteins (2,13,62,63). Their appearance leads to activation of an alternative upstream promoter, Cp, from which the full complement of EBNA proteins is expressed, as well as to activation of the more distant LMP promoters (1, 54, 60, 61, 67), thereby completing the full range of latent protein expression. The activation of Cp is followed by a gradual waning of Wp transcription such that Cp is dominant over Wp in most established LCLs (4, 63).Virus-driven B-cell growth transformation is also observed in vivo during primary EBV infection. Thus, Wp, Cp, and LMP transcripts are detectable in the circulating B-cell pool of infectious mononucleosis (IM) patients (58). However, after resolution of the acute infection and establishment of a lifelong virus carrier state, virus-infected cells in the blood are only detectable within the resting memory B-cell pool (5, 32) and show a different program of viral transcription; in particular, Wp, Cp, and most if not all of the LMP promoters (with the possible exception of LMP2A) appear to be silent (41, 58). The mechanisms of promoter regulation which effect this switch to a more restricted form of virus latency are still not understood. However, some interesting potential clues have come from the study of EBV genome-positive malignancies, such as Burkitt's lymphoma (BL) and nasopharyngeal carcinoma, which also show more limited patterns of latent protein expression than do LCLs (42). In particular, Wp and Cp are silent in such tumors, and the only detectable EBNA, EBNA1, is expressed from a downstream EBNA1-specific promoter, Qp (48-50). Digestion of viral DNA from these tumors, using restriction enzymes that are either sensitive or insensitive to the presence of a methylated cytosine in the target sequence, indicated that several regions of the genome were more heavily methylated in tumor cells than in LCLs (3,4,11,20,22,31,51). These regions included the BamHI W and C fragments, within which Wp and Cp are situated, but not the region around Qp. Given the increasing evidence for methylation at CpG dinucleotides as a general mechanism of promoter silencing in eukaryotic cells (10), this raised the possibility that methylation of EBV latent promoters...