DNA synthesis was followed in vivo and in permeable Escherichiu coli after (a) ultraviolet light irradiation, (b) irradiation and incubation in a growth medium containing chloramphenicol and (c) in unirradiated cells. In vitro, replicative type DNA synthesis was partially restored after incubation of cells in medium containing chloramphenicol, but not in vivo. The DNA was pulse-labeled in permeable cells in the presence of deoxyribonucleoside triphosphates and ribonucleoside triphosphates. dCTP was replaced by 5-Hg-dCTP as a substrate for DNA synthesis. Hg-DNA was separated from cellular nucleic acids on thiol-agarose affinity columns. The 5' termini of newly synthesized DNA were analyzed after treatment with alkaline phosphatase and rephosphorylation with polynucleotide kinase and [Y-~'P]ATP. DNA synthesis in unirradiated permeable E. coli represents a replicative process dependent on ATP and inhibited by novobiocin. About 70% of the nascent DNA carried terminally labeled RNA moiety at its 5'end. In vitro DNA synthesis in irradiated cells was suppressed and hardly influenced by the presence of ATP or novobiocin. The 5'-RNA content of this cell population was less than 5%.Ultraviolet light irradiation of Escherichia coli strongly inhibits in vivo DNA synthesis. In damaged bacteria a special type of DNA synthesis called 'stable DNA replication' takes place [l]. Alkali-labile sites found during this type of suppressed DNA synthesis [2] may come from nascent DNA pieces initiated by short RNA primers. Alternatively, alkali lability may be due to pseudo-Okazaki fragments of damage origin.In order to study in vitro DNA synthesis a permeable E. coli system has been developed which shows the characteristics of replicative synthesis [3]. Studies in permeable cells showed that the ATP-dependent synthesis represented discontinuous DNA elongation without chromosome initiation [4] that was sensitive to inhibitors of semiconservative DNA replication such as novobiocin 151.Recently we have developed a novel approach to the study of early replicative intermediates involving pulse-labeling with mercurated nucleotides and the 5'-end analysis of nascent mercuri-DNA that was isolated on thiol-agarose affinity matrix [6]. Here we describe the analysis of 5' ends of short Hg-DNA pieces synthesized in permeable E. coli cells prior to and after ultraviolet light irradiation. Our data indicate an RNA-primed DNA replication in unirradiated E. coli and a drastically reduced level of RNA-linked DNA among short fragments from irradiated cells
MATERIALS AND METHODS
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