<i>Escherichia coli</i>prereplication complex assembly is regulated by dynamic interplay among Fis, IHF and DnaA

Ryan, Valorie T.; Grimwade, Julia E.; Camara, Johanna E.; Crooke, Elliott; Leonard, Alan C.

doi:10.1046/j.1365-2958.2003.03906.x

Cited by 116 publications

(162 citation statements)

References 53 publications

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“…In the case of pTiC58, this AT-rich DNA contains the sequence 5#-TTCAGTACATTA, which resembles the putative binding site for integration host factor (IHF) binding, 5#-[A/T]-TCAANNNNTTA (Friedman, 1988;McGuire et al, 2000). Because IHF is involved in virtually all forms of nucleoid manipulation including DNA unwinding (Ryan et al, 2004), it is possible that this protein supports DNA cleavage at left borders in a similar way as reported previously for oriT (Karl et al, 2001).…”

Section: Discussionmentioning

confidence: 80%

“…Rommens, unpublished data). Thus, the facilitation of local DNA unwinding may not just be important for initiation but also for termination of DNA transfer in a similar way as described for conjugative DNA transfer (Ryan et al, 2004). In the case of pTiC58, this AT-rich DNA contains the sequence 5#-TTCAGTACATTA, which resembles the putative binding site for integration host factor (IHF) binding, 5#-[A/T]-TCAANNNNTTA (Friedman, 1988;McGuire et al, 2000).…”

Section: Discussionmentioning

confidence: 99%

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Plant-Derived Transfer DNAs

et al. 2005

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The transfer of DNA from Agrobacterium to plant cell nuclei is initiated by a cleavage reaction within the 25-bp right border of Ti plasmids. In an effort to develop all-native DNA transformation vectors, 50 putative right border alternatives were identified in both plant expressed sequence tags and genomic DNA. Efficacy tests in a tobacco (Nicotiana tabacum) model system demonstrated that 14 of these elements displayed at least 50% of the activity of conventional Agrobacterium transfer DNA borders. Four of the most effective plant-derived right border alternatives were found to be associated with intron-exon junctions. Additional elements were embedded within introns, exons, untranslated trailers, and intergenic DNA. Based on the identification of a single right border alternative in Arabidopsis and three in rice (Oryza sativa), the occurrence of this motif was estimated at a frequency of at least 0.8 3 10 28 . Modification of plasmid DNA sequences flanking the alternative borders demonstrated that both upstream and downstream sequences play an important role in initiating DNA transfer. Optimal DNA transfer required the elements to be preceded by pyrimidine residues interspaced by AC-rich trinucleotides. Alteration of this organization lowered transformation frequencies by 46% to 93%. Despite their weaker resemblance with left borders, right border alternatives also functioned effectively in terminating DNA transfer, if both associated with an upstream A[C/T

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Section: Discussionmentioning

confidence: 80%

Section: Discussionmentioning

confidence: 99%

Plant-Derived Transfer DNAs

et al. 2005

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“…Histone-like protein Fis functions as a cell cycle inhibitor in this regulation. It inhibits DNA replication from oriC by suppressing DnaA, IHF binding, and oriC unwinding [93,94]. Fis is abundant in the exponential phase and its abundance decreases to an undetectable level at the stationary phase ( Table 2).…”

Section: Loss Of Cell Cycle Inhibitors In the Stationary Phasementioning

confidence: 99%

Bacterial Stationary-State Mutagenesis and Mammalian Tumorigenesis as Stress-Induced Cellular Adaptations and the Role of Epigenetics

Karpinets

Greenwood²,

Pogribny³

et al. 2006

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Mechanisms of cellular adaptation may have some commonalities across different organisms. Revealing these common mechanisms may provide insight in the organismal level of adaptation and suggest solutions to important problems related to the adaptation. An increased rate of mutations, referred as the mutator phenotype, and beneficial nature of these mutations are common features of the bacterial stationary-state mutagenesis and of the tumorigenic transformations in mammalian cells. We argue that these commonalities of mammalian and bacterial cells result from their stressinduced adaptation that may be described in terms of a common model. Specifically, in both organisms the mutator phenotype is activated in a subpopulation of proliferating stressed cells as a strategy to survival. This strategy is an alternative to other survival strategies, such as senescence and programmed cell death, which are also activated in the stressed cells by different subpopulations. Sustained stress-related proliferative signalling and epigenetic mechanisms play a decisive role in the choice of the mutator phenotype survival strategy in the cells. They reprogram cellular functions by epigenetic silencing of cell-cycle inhibitors, DNA repair, programmed cell death, and by activation of repetitive DNA elements. This reprogramming leads to the mutator phenotype that is implemented by error-prone cell divisions with the involvement of Y family polymerases. Studies supporting the proposed model of stress-induced cellular adaptation are discussed. Cellular mechanisms involved in the bacterial stress-induced adaptation are considered in more detail.

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“…119 (Figure 1), (Cassler et al, 1995;Ryan et al, 2004). Additional proteins such as DiaA and HU (Heat unstable protein) bind to domain I of DnaA, contributing to the stabilization of the joining of their protomers to oriC (Ishida et al, 2004;Chodavarapu et al, 2008).…”

Section: Additional Components Of the Orisomementioning

confidence: 99%