Using a genetic assay for efficient autonomous replication, we have isolated from Schizosaccharomyces pombe a 6.2-kb fragment which shows the properties expected of an origin of DNA replication in S. pombe. A 2.8-kb subclone of the fragment has the same replication properties. Two-dimensional gel analysis of replication intermediates throughout plasmids carrying the 6.2-or 2.8-kb fragments shows that replication initiates only in a specific region, which can be localized to within several hundred base pairs, in the fragments. This region is also a site of replication initiation in the S. pombe chromosome where the fragments normally reside. These results provide strong evidence that initiation of replication in S. pombe is localized and mediated by specific DNA sequence signals.Characterization of replication origins in fission yeasts has lagged behind studies of budding yeasts, and it has remained unclear whether specific DNA sequences are involved. Both budding and fission yeasts are characterized by small (14-Mb) genomes and facile genetic analysis, thereby serving as valuable eukaryotic model organisms for a wide variety of studies. In particular, an advanced degree of understanding of the cell cycle exists for both types of yeasts (reviewed in reference 12) and presents the most promising available opportunity to elucidate the control of eukaryotic DNA replication at the molecular level. The definition of replication origins in fission yeasts is a key element in such studies.Origins of replication in the budding yeast Saccharomyces cerevisiae were initially identified genetically as autonomously replicating sequences (19,44). Autonomously replicating sequences characterized for S. cerevisiae contain an 11-bp consensus sequence (reviewed in reference 35). Mutations at each base pair of this sequence inhibit replication (24, 49). Less well defined flanking regions are also critical for efficient replication (6,29,37,48,51). By two-dimensional replication mapping techniques, it has been possible to correlate these genetically defined autonomously replicating sequences with the physical sites of initiation on both plasmids and chromosomes (3,9,20,21). Proteins that bind to the consensus region have recently been identified and are candidates to represent proteins mediating the initiation of replication (2).Knowledge about replication origins in the fission yeast Schizosaccharomyces pombe is far less complete. Various fragments that mediate autonomous replication, as judged by high transformation frequency and plasmid instability, have been reported for S. pombe (1,14,18,23,32,33,40 The inability to identify specific sequence requirements for replication initiation and the paucity of physical mapping studies have led to an ambiguous picture of origins of replication in the fission yeast, in which it has not been clear whether or not initiation is sequence specific. The only physical mapping study employing two-dimensional (2-D) gels to characterize replication intermediates in S. pombe involved a survey across a...