ArticleMolecular systems biology2012
Gene location and DNA density determine transcription factor distributions in Escherichia coli.
Article in Molecular systems biology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 69 papers.
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Who cites it
69 citing papers in PubMed, 131 citations in OpenAlex.
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- Analysis of Fluorescent Proteins for Observing Single Gene Locus in a Live and FixedThe journal of physical chemistry. B · 2024Article
- Target search by an imported conjugative DNA element for a unique integration site along a bacterial chromosome during horizontal gene transfer.Nucleic acids research · 2023Article
- Principles of gene regulation quantitatively connect DNA to RNA and proteins in bacteria.Science (New York, N.Y.) · 2022Article
- Relationship between the Chromosome Structural Dynamics and Gene Expression-A Chicken and Egg Dilemma?Microorganisms · 2022Review
- Controlling gene expression timing through gene regulatory architecture.PLoS computational biology · 2022Article
- Targeted insertion of large genetic payloads using cas directed LINE-1 reverse transcriptase.Scientific reports · 2021Article
- Bacterial transcription during growth arrest.Transcription · 2021Review
- Composition of Transcription Machinery and Its Crosstalk with Nucleoid-Associated Proteins and Global Transcription Factors.Biomolecules · 2021Review
- IonoBiology: The functional dynamics of the intracellular metallome, with lessons from bacteria.Cell systems · 2021Review
- Quasi-robust control of biochemical reaction networks via stochastic morphing.Journal of the Royal Society, Interface · 2021Article
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- Bacterial Vivisection: How Fluorescence-Based Imaging Techniques Shed a Light on the Inner Workings of Bacteria.Microbiology and molecular biology reviews : MMBR · 2020Review
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- Inherent regulatory asymmetry emanating from network architecture in a prevalent autoregulatory motif.eLife · 2020Article
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- Chromosomal origin of replication coordinates logically distinct types of bacterial genetic regulation.NPJ systems biology and applications · 2020Article
9 more citing papers are in PubMed but not listed here.
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
Abstract
The diffusion coefficient of the transcription factor LacI within living Escherichia coli has been measured directly by in vivo tracking to be D = 0.4 μm(2)/s. At this rate, simple models of diffusion lead to the expectation that LacI and other proteins will rapidly homogenize throughout the cell. Here, we test this expectation of spatial homogeneity by single-molecule visualization of LacI molecules non-specifically bound to DNA in fixed cells. Contrary to expectation, we find that the distribution depends on the spatial location of its encoding gene. We demonstrate that the spatial distribution of LacI is also determined by the local state of DNA compaction, and that E. coli can dynamically redistribute proteins by modifying the state of its nucleoid. Finally, we show that LacI inhomogeneity increases the strength with which targets located proximally to the LacI gene are regulated. We propose a model for intranucleoid diffusion that can reconcile these results with previous measurements of LacI diffusion, and we discuss the implications of these findings for gene regulation in bacteria and eukaryotes.
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