ArticleMolecular systems biology2013
Dissecting specific and global transcriptional regulation of bacterial gene expression.
Article in Molecular systems biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 69 papers, 1 of them a synthesis that pooled it.
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Who cites it
69 citing papers in PubMed, 1 synthesis or guideline pooled it, 133 citations in OpenAlex.
- Analysing and meta-analysing time-series data of microbial growth and gene expression from plate readers.PLoS computational biology · 2022Pooled it
- Analytical Ultracentrifugation in Aotearoa: A Brief History of the Technique and its Place Among Other Tools Used to Investigate Biomolecular Interactions.Journal of the Royal Society of New Zealand · 2026Review
- Genomic prediction of symbiotic interactions between two Endozoicomonas clades and their coral host, Acropora loripes.Animal microbiome · 2025Article
- Article
- Fitness and adaptive evolution of a Rhodococcus sp. harboring dioxin-catabolic plasmids.World journal of microbiology & biotechnology · 2025Article
- Single-cell data reveal heterogeneity of investment in ribosomes across a bacterial population.Nature communications · 2025Article
- Tradeoffs in bacterial physiology determine the efficiency of antibiotic killing.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- High-throughput, fluorescent-aptamer-based measurements of steady-state transcription rates for the Mycobacterium tuberculosis RNA polymerase.Nucleic acids research · 2023Article
- High-throughput, fluorescent-aptamer-based measurements of steady-state transcription rates forbioRxiv : the preprint server for biology · 2023Article
- An electrogenetic toggle switch model.Microbial biotechnology · 2023Article
- Principles of gene regulation quantitatively connect DNA to RNA and proteins in bacteria.Science (New York, N.Y.) · 2022Article
- Developing a dynamic equilibrium system in Escherichia coli to improve the production of recombinant proteins.Applied microbiology and biotechnology · 2022Article
- Homeostasis of the biosyntheticiScience · 2022Article
- The transcription factor network of E. coli steers global responses to shifts in RNAP concentration.Nucleic acids research · 2022Article
- Dissecting the Fitness Costs of Complex Mutations.Molecular biology and evolution · 2021Article
- Predicting synchronized gene coexpression patterns from fibration symmetries in gene regulatory networks in bacteria.BMC bioinformatics · 2021Article
- Gene Regulation and Cellular Metabolism: An Essential Partnership.Trends in genetics : TIG · 2021Review
- Global coordination of metabolic pathways in Escherichia coli by active and passive regulation.Molecular systems biology · 2021Article
- Systematic alteration of in vitro metabolic environments reveals empirical growth relationships in cancer cell phenotypes.Cell reports · 2021Article
- Multi-wavelength analytical ultracentrifugation as a tool to characterise protein-DNA interactions in solution.European biophysics journal : EBJ · 2020Article
9 more citing papers are in PubMed but not listed here.
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 1 institution in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Gene expression is regulated by specific transcriptional circuits but also by the global expression machinery as a function of growth. Simultaneous specific and global regulation thus constitutes an additional--but often neglected--layer of complexity in gene expression. Here, we develop an experimental-computational approach to dissect specific and global regulation in the bacterium Escherichia coli. By using fluorescent promoter reporters, we show that global regulation is growth rate dependent not only during steady state but also during dynamic changes in growth rate and can be quantified through two promoter-specific parameters. By applying our approach to arginine biosynthesis, we obtain a quantitative understanding of both specific and global regulation that allows accurate prediction of the temporal response to simultaneous perturbations in arginine availability and growth rate. We thereby uncover two principles of joint regulation: (i) specific regulation by repression dominates the transcriptional response during metabolic steady states, largely repressing the biosynthesis genes even when biosynthesis is required and (ii) global regulation sets the maximum promoter activity that is exploited during the transition between steady states.
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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.