Roles of the DNA binding proteins H-NS and StpA in homologous recombination and repair of bleomycin-induced damage in Escherichia coli

Shiraishi, Kouya; Ogata, Yudai; Hanada, Katsuhiro; Kano, Yasunobu; Ikeda, Hideo

doi:10.1266/ggs.82.433

Cited by 9 publications

(10 citation statements)

References 37 publications

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“…The results in Figure 2 are in good agreement with these findings, particularly considering that different types of measurements have been used. Ikeda and coworkers [61] have reported moderately increased sensitivity of hns mutants to BLM at 30°C, but we have not detected sensitivity in our experiments at 37°C. An extensive study of 5AZ sensitivity [62] examined 25 repair and recombination mutants, and detected recA,B,C,G, ruvA,C, uvrD mutants as being significantly more sensitive than wild-type.…”

Section: Discussioncontrasting

confidence: 91%

Determination of hypersensitivity to genotoxic agents among Escherichia coli single gene knockout mutants

Becket¹,

Chen²,

Tamae³

et al. 2010

DNA Repair

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Summary We have tested the KEIO collection of 3985 different viable single gene knockouts in Escherichia coli to identify genes whose loss increases sensitivity to one or more of six different chemotherapeutic agents and mutagens: Bleomycin (BLM), Cisplatin (CPT), ICR-191 (ICR), 5-azacytidine (5AZ), Zebularine (ZEB), and 5-bromo-2’-deoxyuridine (5BdU). We discovered a set of 156 strains that display a significant increase in sensitivity to at least one of the agents tested. Each genotoxic agent generates a distinct “sensitivity profile” that is characteristic of the agent. Comparison with an independent study of sensitivity profiles for an extensive set of antibiotics pinpoints those effects that are relatively specific for each agent. In some cases engineered double mutants have greatly increased effects. These results provide insight into the mechanism of action of each agent, and define targets for the design of co-drugs that can potentiate these agents. An example is the finding that mutants lacking one of several genes in the folate biosynthetic pathway are hypersensitive to ZEB, leading to a demonstration of synergy between trimethoprim and ZEB.

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Section: Discussioncontrasting

confidence: 91%

Determination of hypersensitivity to genotoxic agents among Escherichia coli single gene knockout mutants

Becket¹,

Chen²,

Tamae³

et al. 2010

DNA Repair

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“…In E. coli, the NAP protein family includes at least 11 other proteins in addition to IHF and HU (Ali Azam et al, 1999). Interestingly, two NAPs, Fis and H-NS, that are highly expressed in the exponential phase (Ali Azam et al, 1999) have a predominant role in DNA structure intra-bacterially (Shiraishi et al, 2007;Cendra Mdel et al, 2013;Flatten and Skarstad, 2013;Ohniwa et al, 2013;Sato et al, 2013), yet have no effect on biofilm formation when added exogenously within the limits of the assays as presented here (Supporting Information Fig. S4).…”

Section: Discussionmentioning

confidence: 72%

DNABII proteins play a central role in UPEC biofilm structure

Devaraj

Justice

Bakaletz

et al. 2015

Molecular Microbiology

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Summary Most chronic and recurrent bacterial infections involve a biofilm component, the foundation of which is the extracellular polymeric substance (EPS). Extracellular DNA (eDNA) is a conserved and key component of the EPS of pathogenic biofilms. The DNABII protein family includes integration host factor (IHF) and Histone-like protein (HU); both are present in the extracellular milieu. We have shown previously that the DNABII proteins are often found in association with eDNA and are critical for the structural integrity of bacterial communities that utilize eDNA as a matrix component. Here, we demonstrated that Uropathogenic E. coli (UPEC) strain UTI89 incorporates eDNA within its biofilm matrix and that the DNABII proteins are not only important for biofilm growth, but are limiting; exogenous addition of these proteins promotes biofilm formation that is dependent on eDNA. In addition, we show that both subunits of IHF, yet only one subunit of HU (HupB), are critical for UPEC biofilm development. We discuss the roles of these proteins in context of the UPEC EPS.

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“…For example, H-NS and StpA may be involved in repair of double strand DNA breaks, 79 with the former shown to bind to Holliday junctions in vitro. For example, H-NS and StpA may be involved in repair of double strand DNA breaks, 79 with the former shown to bind to Holliday junctions in vitro.…”

Section: View Article Onlinementioning

confidence: 99%

Genomic analysis reveals epistatic silencing of “expensive” genes in Escherichia coli K-12

Srinivasan¹,

Chandraprakash²,

Krishnamurthi³

et al. 2013

Mol. BioSyst.

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A barrier for horizontal gene transfer is high gene expression, which is metabolically expensive. Silencing of horizontally-acquired genes in the bacterium Escherichia coli is caused by the global transcriptional repressor H-NS. The activity of H-NS is enhanced or diminished by other proteins including its homologue StpA, and Hha and YdgT. The interconnections of H-NS with these regulators and their role in silencing gene expression in E. coli are not well understood on a genomic scale. In this study, we use transcriptome sequencing to show that there is a bi-layered gene silencing system - involving the homologous H-NS and StpA - operating on horizontally-acquired genes among others. We show that H-NS-repressed genes belong to two types, termed "epistatic" and "unilateral". In the absence of H-NS, the expression of "epistatically controlled genes" is repressed by StpA, whereas that of "unilaterally controlled genes" is not. Epistatic genes show a higher tendency to be non-essential and recently acquired, when compared to unilateral genes. Epistatic genes reach much higher expression levels than unilateral genes in the absence of the silencing system. Finally, epistatic genes contain more high affinity H-NS binding motifs than unilateral genes. Therefore, both the DNA binding sites of H-NS as well as the function of StpA as a backup system might be selected for silencing highly transcribable genes.

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Roles of the DNA binding proteins H-NS and StpA in homologous recombination and repair of bleomycin-induced damage in Escherichia coli

Cited by 9 publications

References 37 publications

Determination of hypersensitivity to genotoxic agents among Escherichia coli single gene knockout mutants

Determination of hypersensitivity to genotoxic agents among Escherichia coli single gene knockout mutants

DNABII proteins play a central role in UPEC biofilm structure

Genomic analysis reveals epistatic silencing of “expensive” genes in Escherichia coli K-12

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