In early Xenopus embryos, in which ribosomal RNA genes (rDNA) are not
transcribed, rDNA replication initiates and terminates at 9- to 12-kil
obase pair intervals, with no detectable dependence on specific DNA se
quences. Resumption of ribosomal RNA (rRNA) synthesis at late blastula
and early gastrula is accompanied by a specific repression of replica
tion initiation within transcription units; the frequency of initiatio
n within intergenic spacers remains as high as in early blastula, Thes
e results demonstrate that for rRNA genes, circumscribed zones of repl
ication initiation emerge in intergenic DNA during the time in metazoa
n development when the chromatin is remodeled to allow gene transcript
ion.