Replication Signals in Prokaryotic DNA

Hobom, Gerd

doi:10.1007/978-3-642-68120-2_3

Cited by 12 publications

(5 citation statements)

References 335 publications

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“…The origin DNA binding activity of 5-6S T antigen was -10-fold greater than that of the 14-16S subclass (Figure 3). However, the affinity of 14-16S T antigen for origin DNA was equal to or Tjian, 1978Tjian, ,1979 Myers and Tjian, 1980;(c) McKay, 1981; McKay and DiMaio, 1981; (e) Shalloway et al, 1980;(f) Tegtmeyer et al, 1981;(g) DiMaio and Nathans, 1980). slightly greater than that of the 5-6S form ( Figure 4A), but its affinity for cellular DNA was much greater (Figure 4B,C).…”

Section: Discussionmentioning

confidence: 92%

“…The 5-6S form of T antigen appears to bind more 'efficiently' to the viral origin region than the 14-16S form Gidoni et al, 1982; Figure 1). However, the affinity of 14-16S T antigen for origin DNA was equal to or Tjian, 1978Tjian, ,1979 Myers and Tjian, 1980;(c) McKay, 1981; McKay and DiMaio, 1981; (e) Shalloway et al, 1980;(f) Tegtmeyer et al, 1981;(g) DiMaio and Nathans, 1980). The origin DNA binding activity of 5-6S T antigen was -10-fold greater than that of the 14-16S subclass ( Figure 3).…”

Section: Discussionmentioning

confidence: 94%

“…Phosphorylation, perhaps coupled with aggregation of T antigen (E. Baumann and R. Hand, in preparation), may regulate the amount of newly synthesized T antigen available for specific binding to the origin. Replication could be initiated on those DNA molecules which carry T antigen on the major binding site 1027 and which then become transcriptionally activated (reviewed in Hobom, 1981). Although many features of this proposal…”

Section: Discussionmentioning

confidence: 99%

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Subclasses of simian virus 40 large T antigen: differential binding of two subclasses of T antigen from productively infected cells to viral and cellular DNA.

Fanning¹,

Westphal²,

Brauer³

et al. 1982

The EMBO Journal

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Two major subclasses of simian virus 40 (SV40) large T antigen were separated by zone velocity sedimentation of crude extracts from productively infected cells. These subclasses, which have been shown to differ biologically and biochemically (Fanning et al., 1981), sedimented at 5‐6S and 14‐16S. The amount of T antigen in each form was estimated by complement fixation and by immunoprecipitation of T antigen from extracts of cells chronically labeled with [35S]methionine. Each form of T antigen was tested for specific binding to end‐labeled restriction fragments of SV40 DNA using an immunoprecipitation assay. The 5‐6S and 14‐16S forms of T antigen both bound specifically to DNA sequences in the SV40 HindIII C fragment. The sequences required for binding both forms were localized in the same 35‐bp region of the origin. However, significant differences in binding activity and affinity for specific and nonspecific DNA were demonstrated. These properties suggest that T antigen subclasses may serve different functions in the lytically infected cell.

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Section: Discussionmentioning

confidence: 92%

Section: Discussionmentioning

confidence: 94%

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

Subclasses of simian virus 40 large T antigen: differential binding of two subclasses of T antigen from productively infected cells to viral and cellular DNA.

Fanning¹,

Westphal²,

Brauer³

et al. 1982

The EMBO Journal

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“…The initiation of replication on the two strands of ori sequences Since replication initiation may be due to two different enzymes, it is conceivable that the frequency of replication initiation is different on the two strands, and also that initiation on the 'non-r strand' requires previous opening of cluster C by transcripts and/or nascent DNA chains copied on the 'r strand'. Incidentally, this explanation (inspired by the transcriptional activation proposed for other genomes; Hobom, 1981), suggests that the inactivation of the r sequence by the insertion of cluster -y may also block replication using the 'non-r strand' as template. In any case, if replication of one strand lags behind that of the other, the replication of the lagging strand would become the rate-limiting factor in the replication of the tandem repeat units of spontaneous petite genome.…”

Section: Discussionmentioning

confidence: 99%

The initiation of DNA replication in the mitochondrial genome of yeast.

Baldacci¹,

Chérif-Zahar²,

Bernardi³

1984

The EMBO Journal

112

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We report here the first direct demonstration that the active ori sequences of the mitochondrial genome of Saccharomyces cerevisiae are indeed origins of DNA replication, as previously postulated on the basis of compelling but indirect evidence. Basically, such sequences are formed by four regions: (i) GC clusters A and B, which are separated by a 29‐bp AT stretch; (ii) a central 200‐bp AT stretch, l; (iii) GC cluster C; (iv) a 16‐bp AT stretch r, which comprises a site for transcription initiation. The ori sequences investigated, ori 1 and ori 5, have opposite orientations on the parental wild‐type genome; ori 1 has but ori 5 does not have an additional 14‐bp AT stretch r', between cluster C and sequence r; they were carried by the genomes of two spontaneous petites. In both ori sequences, nascent DNA chains using as template the strand containing sequence r (the ‘r strand’) start at the r end of cluster C, are elongated towards sequence l, and follow an RNA primer starting at sequence r. Nascent DNA chains copied on the ‘non‐r strand’ start within cluster C, are elongated towards sequence r, and follow an RNA primer starting in sequence l just before cluster C. Ori 1 and 5 are, therefore, used as sites for RNA‐primed bidirectional replication of mitochondrial DNA. Several aspects of this process are discussed.

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“…Most striking is the asymmetry seen in the left and right arm bp frequency profiles ( Fig 2 ). We favour the idea that this asymmetry reflects frequent failure of bidirectionality, such that c2 and c3 occasionally replicate by reverting to the unidirectional replication mode that presumably characterized their plasmid ancestors [ 57 ]. This observation has an important corollary—that a crucial component of the transition of a replicon from low-copy number plasmid to chromosome lifestyle is acquisition of the ability to replicate bidirectionally, thus halving the replication time and allowing the progressively expanding replicon to be replicated within the cell cycle.…”

Section: Discussionmentioning

confidence: 99%

Orderly Replication and Segregation of the Four Replicons of Burkholderia cenocepacia J2315

Dubarry

Passot

et al. 2016

PLoS Genet

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Bacterial genomes typically consist of a single chromosome and, optionally, one or more plasmids. But whole-genome sequencing reveals about ten per-cent of them to be multipartite, with additional replicons which by size and indispensability are considered secondary chromosomes. This raises the questions of how their replication and partition is managed without compromising genome stability and of how such genomes arose. Vibrio cholerae, with a 1 Mb replicon in addition to its 3 Mb chromosome, is the only species for which maintenance of a multipartite genome has been investigated. In this study we have explored the more complex genome of Burkholderia cenocepacia (strain J2315). It comprises an extra replicon (c2) of 3.21 Mb, comparable in size to the3.87Mb main chromosome (c1), another extra replicon(c3) of 0.87 Mb and a plasmid of 0.09 Mb. The replication origin of c1 is typically chromosomal and those of c2 and c3 are plasmid-like; all are replicated bidirectionally. Fluorescence microscopy of tagged origins indicates that all initiate replication at mid-cell and segregate towards the cell quarter positions sequentially, c1-c2-p1/c3. c2 segregation is as well-phased with the cell cycle as c1, implying that this plasmid-like origin has become subject to regulation not typical of plasmids; in contrast, c3 segregates more randomly through the cycle. Disruption of individual Par systems by deletion of parAB or by addition of parS sites showed each Par system to govern the positioning of its own replicon only. Inactivation of c1, c2 and c3 Par systems not only reduced growth rate, generated anucleate cells and compromised viability but influenced processes beyond replicon partition, notably regulation of replication, chromosome condensation and cell size determination. In particular, the absence of the c1 ParA protein altered replication of all three chromosomes, suggesting that the partition system of the main chromosome is a major participant in the choreography of the cell cycle.

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Replication Signals in Prokaryotic DNA

Cited by 12 publications

References 335 publications

Subclasses of simian virus 40 large T antigen: differential binding of two subclasses of T antigen from productively infected cells to viral and cellular DNA.

Subclasses of simian virus 40 large T antigen: differential binding of two subclasses of T antigen from productively infected cells to viral and cellular DNA.

The initiation of DNA replication in the mitochondrial genome of yeast.

Orderly Replication and Segregation of the Four Replicons of Burkholderia cenocepacia J2315

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