All eukaryotes use similar proteins to licence replication origins but, par
adoxically, origin DNA is much less conserved. Specific binding sites for t
hese proteins have now been identified on fission yeast and Drosophila chro
mosomes, suggesting that the DNA-binding activity of the origin recognition
complex has diverged to recruit conserved initiation factors on polymorphi
c replication origins. Once formed, competent origins are activated by cycl
in- and Dbf4-dependent kinases. The latter have been shown to control S pha
se in several organisms but, in contrast to cyclin-dependent kinases, seem
regulated at the level of individual origins. Global and local regulations
generate specific patterns of DNA replication that help establish epigeneti
c chromosome states.