ArticleNature2008
Metabolic gene regulation in a dynamically changing environment.
Article in Nature, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 147 papers.
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Who cites it
147 citing papers in PubMed.
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- Review and assessment of Boolean approaches for inference of gene regulatory networks.Heliyon · 2022Review
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- FiCoS: A fine-grained and coarse-grained GPU-powered deterministic simulator for biochemical networks.PLoS computational biology · 2021Article
- Computational analysis of GAL pathway pinpoints mechanisms underlying natural variation.PLoS computational biology · 2021Article
- Gene Regulation and Cellular Metabolism: An Essential Partnership.Trends in genetics : TIG · 2021Review
- A predictive model of gene expression reveals the role of network motifs in the mating response of yeast.Science signaling · 2021Article
- Computational study on ratio-sensing in yeast galactose utilization pathway.PLoS computational biology · 2020Article
- Genome-scale transcriptional dynamics and environmental biosensing.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- A System for Analog Control of Cell Culture Dynamics to Reveal Capabilities of Signaling Networks.iScience · 2019Article
- Quantitative analysis of the yeast pheromone pathway.Yeast (Chichester, England) · 2019Article
87 more citing papers are in PubMed but not listed here.
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Authors and funding
7 authors.
Funding
Abstract
Natural selection dictates that cells constantly adapt to dynamically changing environments in a context-dependent manner. Gene-regulatory networks often mediate the cellular response to perturbation, and an understanding of cellular adaptation will require experimental approaches aimed at subjecting cells to a dynamic environment that mimics their natural habitat. Here we monitor the response of Saccharomyces cerevisiae metabolic gene regulation to periodic changes in the external carbon source by using a microfluidic platform that allows precise, dynamic control over environmental conditions. We show that the metabolic system acts as a low-pass filter that reliably responds to a slowly changing environment, while effectively ignoring fast fluctuations. The sensitive low-frequency response was significantly faster than in predictions arising from our computational modelling, and this discrepancy was resolved by the discovery that two key galactose transcripts possess half-lives that depend on the carbon source. Finally, to explore how induction characteristics affect frequency response, we compare two S. cerevisiae strains and show that they have the same frequency response despite having markedly different induction properties. This suggests that although certain characteristics of the complex networks may differ when probed in a static environment, the system has been optimized for a robust response to a dynamically changing environment.
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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.