ArticlePloS one2012
Physical organization of DNA by multiple non-specific DNA-binding modes of integration host factor (IHF).
Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
27 citing papers in PubMed, 52 citations in OpenAlex.
- Review
- Spatio-temporal organization of theEcoSal Plus · 2024Review
- CRP and IHF act as host regulators in Royal Jelly's antibacterial activity.Scientific reports · 2024Article
- Unravelling DNA Organization with Single-Molecule Force Spectroscopy Using Magnetic Tweezers.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Atomic Force Microscopy Characterization of Reconstituted Protein-DNA Complexes.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Mycobacterial IHF is a highly dynamic nucleoid-associated protein that assists HupB in organizing chromatin.Frontiers in microbiology · 2023Article
- A phage-encoded nucleoid associated protein compacts both host and phage DNA and derepresses H-NS silencing.Nucleic acids research · 2021Article
- Single-molecule insight into stalled replication fork rescue in Escherichia coli.Nucleic acids research · 2021Review
- Bacterial Nucleoid: Interplay of DNA Demixing and Supercoiling.Biophysical journal · 2020Article
- Architecture of the Escherichia coli nucleoid.PLoS genetics · 2019Article
- Force-Dependent Binding Constants.Biochemistry · 2019Review
- Static Kinks or Flexible Hinges: Multiple Conformations of Bent DNA Bound to Integration Host Factor Revealed by Fluorescence Lifetime Measurements.The journal of physical chemistry. B · 2018Article
- Force-extension behavior of DNA in the presence of DNA-bending nucleoid associated proteins.The Journal of chemical physics · 2018Article
- Theoretical Methods for Studying DNA Structural Transitions under Applied Mechanical Constraints.Polymers · 2017Review
- Facilitated Dissociation Kinetics of Dimeric Nucleoid-Associated Proteins Follow a Universal Curve.Biophysical journal · 2017Article
- Probing Small Molecule Binding to Unfolded Polyprotein Based on its Elasticity and Refolding.Biophysical journal · 2016Article
- Regulation of Bacterial DNA Packaging in Early Stationary Phase by Competitive DNA Binding of Dps and IHF.Scientific reports · 2015Article
- H-NS Regulates Gene Expression and Compacts the Nucleoid: Insights from Single-Molecule Experiments.Biophysical journal · 2015Review
- Molecular dissection of Mycobacterium tuberculosis integration host factor reveals novel insights into the mode of DNA binding and nucleoid compaction.The Journal of biological chemistry · 2014Article
- Diffusion within the cytoplasm: a mesoscale model of interacting macromolecules.Biophysical journal · 2014Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The integration host factor (IHF) is an abundant nucleoid-associated protein and an essential co-factor for phage λ site-specific recombination and gene regulation in E. coli. Introduction of a sharp DNA kink at specific cognate sites is critical for these functions. Interestingly, the intracellular concentration of IHF is much higher than the concentration needed for site-specific interactions, suggesting that non-specific binding of IHF to DNA plays a role in the physical organization of bacterial chromatin. However, it is unclear how non-specific DNA association contributes to DNA organization. By using a combination of single DNA manipulation and atomic force microscopy imaging methods, we show here that distinct modes of non-specific DNA binding of IHF result in complex global DNA conformations. Changes in KCl and IHF concentrations, as well as tension applied to DNA, dramatically influence the degree of DNA-bending. In addition, IHF can crosslink DNA into a highly compact DNA meshwork that is observed in the presence of magnesium at low concentration of monovalent ions and high IHF-DNA stoichiometries. Our findings provide important insights into how IHF contributes to bacterial chromatin organization, gene regulation, and biofilm formation.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.