The single-stranded circular DNA of Abutilon mosaic geminivirions is complemented to double-stranded DNA by host proteins after infecting cells. This double-stranded DNA serves as a template for replication as well as transcription and is assembled into host nucleosomes, yielding circular viral minichromosomes. Their chromatin structure was analyzed by use of isolated nuclei combining nuclease sensitivity assays with ligationmediated PCR, evaluating nucleosomal ladders and topoisomer distributions in one-and two-dimensional gels by blot hybridization. Viral minichromosomes were found to exist in at least two defined structures covered with 11 or 12 nucleosomes, leaving open gaps accessible for interactions with other host factors. Nucleosomefree gaps were colocalized with promoter structures and the origin of replication in both components of genomic DNA (DNA A and DNA B). Nucleosomes were positioned over the entire viral DNA in at least two alternative phases with different periodicities. The distribution of topoisomers of monomeric viral circular double-stranded DNA confirmed the presence of variable chromatin structures revealing maximum frequencies of molecules with either 11, 12, or 13 superhelical turns (corresponding to respective numbers of nucleosomes) at maximal frequency at different stages during leaf development of infected plants. The role of variable chromatin structures for gene regulation of geminiviruses is discussed.Replication and transcription are central processes in all living organisms. In comparison to animals, much less is known about their regulation in plants (38). DNA viruses, such as simian virus 40, have been extremely helpful model systems for understanding regulatory cascades in animals (23). A similar tool for plants was lacking, but geminiviruses are appropriate to fill this gap because they are similar to papovaviruses in several aspects of genetic organization. Geminiviruses differ from papovaviruses in that they are tiny circular singlestranded DNA (ssDNA)-containing viruses with one or two genomic components (34), but replicate via double-stranded DNA (dsDNA) intermediates in nuclei, organize their replicative and transcriptional DNA intermediates in minichromosomes (2, 32), and transcribe their genes bidirectionally. Correspondingly, the genome organization of geminiviruses is very similar to that of papovaviruses (42).Abutilon mosaic virus (AbMV) of the genus Begomovirus (34) possesses a bipartite genome consisting of DNA A and DNA B (see Fig. 4). The DNAs are different from each other, except for a common region of about 200 nucleotides harboring most of the regulatory elements for replication and transcription. As their genome is very small, they rely on host factors, especially a DNA polymerase, for both replication and transcription (reviewed by Hanley-Bowdoin et al. [16]). The common region contains a palindromic sequence forming a hairpin loop, the origin for a rolling-circle type replication, which functions in replication initiation. Recently, we discovered that a...