A study on the correlation of nucleotide skews and the positioning of the origin of replication: different modes of replication in bacterial species

摘要

Deviations from Chargaff's 2nd parity rule, according to which A similar to T and G similar to C in single stranded DNA, have been associated with replication as well as with transcription in prokaryotes. Based on observations regarding mainly the transcription-replication colinearity in a large number of prokaryotic species, we formulate the hypothesis that the replication procedure may follow different modes between genomes throughout which the skews clearly follow different patterns. We draw the conclusion that multiple functional sites of origin of replication may exist in the genomes of most archaea and in some exceptional cases of eubacteria, while in the majority of eubacteria, replication occurs through a single fixed origin.