ArticleNucleic acids research2008
Single-molecule manipulation reveals supercoiling-dependent modulation of lac repressor-mediated DNA looping.
Article in Nucleic acids research, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed, 46 citations in OpenAlex.
- Coarse-grained modeling reveals the impact of supercoiling and loop length in DNA looping kinetics.Biophysical journal · 2022Article
- Structural interplay between DNA-shape protein recognition and supercoiling: The case of IHF.Computational and structural biotechnology journal · 2022Article
- Single-molecule insights into torsion and roadblocks in bacterial transcript elongation.Transcription · 2021Article
- Tethered multifluorophore motion reveals equilibrium transition kinetics of single DNA double helices.Proceedings of the National Academy of Sciences of the United States of America · 2018Article
- Interference between Triplex and Protein Binding to Distal Sites on Supercoiled DNA.Biophysical journal · 2017Article
- Insights into Genome Architecture Deduced from the Properties of Short Lac Repressor-mediated DNA Loops.Biophysical reviews · 2016Article
- Supercoiling biases the formation of loops involved in gene regulation.Biophysical reviews · 2016Review
- Protein/DNA interactions in complex DNA topologies: expect the unexpected.Biophysical reviews · 2016Review
- Protein/DNA interactions in complex DNA topologies: expect the unexpected.Biophysical reviews · 2016Review
- Optical trapping performance of dielectric-metallic patchy particles.Optics express · 2015Article
- Tethered particle analysis of supercoiled circular DNA using peptide nucleic acid handles.Nature protocols · 2014Article
- Effect of supercoiling on the λ switch.Bacteriophage · 2014Article
- Multiple LacI-mediated loops revealed by Bayesian statistics and tethered particle motion.Nucleic acids research · 2014Article
- DNA supercoiling enhances cooperativity and efficiency of an epigenetic switch.Proceedings of the National Academy of Sciences of the United States of America · 2013Article
- A capture approach for supercoiled plasmid DNA using a triplex-forming oligonucleotide.Nucleic acids research · 2013Article
- Optical Methods to Study Protein-DNA Interactions in Vitro and in Living Cells at the Single-Molecule Level.International journal of molecular sciences · 2013Article
- Article
- Sequence dependence of transcription factor-mediated DNA looping.Nucleic acids research · 2012Article
- A common repressor pool results in indeterminacy of extrinsic noise.Chaos (Woodbury, N.Y.) · 2011Article
- DNA modeling reveals an extended lac repressor conformation in classic in vitro binding assays.Biophysical journal · 2011Article
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Gene expression regulation is a fundamental biological process which deploys specific sets of genomic information depending on physiological or environmental conditions. Several transcription factors (including lac repressor, LacI) are present in the cell at very low copy number and increase their local concentration by binding to multiple sites on DNA and looping the intervening sequence. In this work, we employ single-molecule manipulation to experimentally address the role of DNA supercoiling in the dynamics and stability of LacI-mediated DNA looping. We performed measurements over a range of degrees of supercoiling between -0.026 and +0.026, in the absence of axial stretching forces. A supercoiling-dependent modulation of the lifetimes of both the looped and unlooped states was observed. Our experiments also provide evidence for multiple structural conformations of the LacI-DNA complex, depending on torsional constraints. The supercoiling-dependent modulation demonstrated here adds an important element to the model of the lac operon. In fact, the complex network of proteins acting on the DNA in a living cell constantly modifies its topological and mechanical properties: our observations demonstrate the possibility of establishing a signaling pathway from factors affecting DNA supercoiling to transcription factors responsible for the regulation of specific sets of genes.
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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.