The DOI matches its Crossref record; 35 of the 35 references it cites were found in a registry or an index.
Metabolic gene regulation in a dynamically changing environment
Open accessAbstract
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.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Sikorski, R. S., & Hieter, P. (1989) · Genetics · doi:10.1093/genetics/122.1.19 · Cited by 8,664
Genetic regulatory mechanisms in the synthesis of proteins.
Jacob, F., & Monod, J. (1961) · Journal of Molecular Biology · doi:10.1016/s0022-2836(61)80072-7 · Cited by 5,300
Xia, Y., & Whitesides, G. M. (1998) · Angewandte Chemie International Edition · doi:10.1002/(sici)1521-3773(19980316)37:5<550::aid-anie550>3.0.co;2-g · Cited by 4,285
Chaotic Mixer for Microchannels
Stroock, A. D., Dertinger, S. K. W., Ajdari, A., Mezić, I., Stone, H. A., & Whitesides, G. M. (2002) · Science · doi:10.1126/science.1066238 · Cited by 3,435
Soft Lithography in Biology and Biochemistry
Whitesides, G. M., Ostuni, E., Takayama, S., Jiang, X., & Ingber, D. E. (2001) · Annual Review of Biomedical Engineering · doi:10.1146/annurev.bioeng.3.1.335 · Cited by 2,607
Control of Stochasticity in Eukaryotic Gene Expression
Raser, J. M., & O'Shea, E. K. (2004) · Science · doi:10.1126/science.1098641 · Cited by 1,425
Phenotypic Diversity, Population Growth, and Information in Fluctuating Environments
Kussell, E., & Leibler, S. (2005) · Science · doi:10.1126/science.1114383 · Cited by 1,356
Genetic Control of Biochemical Reactions in Neurospora
Beadle, G. W., & Tatum, E. L. (1941) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.27.11.499 · Cited by 1,062
Generation of Solution and Surface Gradients Using Microfluidic Systems
Jeon, N. L., Dertinger, S. K. W., Chiu, D. T., Choi, I. S., Stroock, A. D., & Whitesides, G. M. (2000) · Langmuir · doi:10.1021/la000600b · Cited by 963
Generation of Gradients Having Complex Shapes Using Microfluidic Networks
Dertinger, S. K. W., Chiu, D. T., Jeon, N. L., & Whitesides, G. M. (2001) · Analytical Chemistry · doi:10.1021/ac001132d · Cited by 839
Cited by
Next-generation synthetic gene networks
Lu, T. K., Khalil, A. S., & Collins, J. J. (2009) · Nature Biotechnology · doi:10.1038/nbt.1591 · Cited by 365
Epigenetic responses to environmental change and their evolutionary implications
Turner, B. M. (2009) · Philosophical Transactions of the Royal Society B: Biological Sciences · doi:10.1098/rstb.2009.0125 · Cited by 293
Reverse engineering and identification in systems biology: strategies, perspectives and challenges
Villaverde, A. F., & Banga, J. R. (2014) · Journal of The Royal Society Interface · doi:10.1098/rsif.2013.0505 · Cited by 229
Molecular and cellular bases of adaptation to a changing environment in microorganisms
Bleuven, C., & Landry, C. R. (2016) · Proceedings of the Royal Society B: Biological Sciences · doi:10.1098/rspb.2016.1458 · Cited by 104
Vacuum-assisted cell loading enables shear-free mammalian microfluidic culture
Kolnik, M., Tsimring, L. S., & Hasty, J. (2012) · Lab on a Chip · doi:10.1039/c2lc40569e · Cited by 86
Self-citation
Metadata
- Authors
- Bennett, M. R., Pang, W. L., Ostroff, N. A., Baumgartner, B. L., Nayak, S., Tsimring, L. S., & Hasty, J.
- Venue
- Nature
- Published
- 2008-07-30
- Volume
- 454
- Issue
- 7208
- Pages
- 1119-1122
- ISSN
- 0028-0836 (ISSN-L)
- 1476-4687
- OpenAlex
- W2136498480
- Cited by
- 287
- References
- 35
- FWCI
- 10.92
- Type
- journal article
- Language
- en
- Open access
- green
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
How to cite
Cite CoChat for the checks on this page, and the paper for its own findings.
- This page
- CoChat. (2026). Citation check: Metabolic gene regulation in a dynamically changing environment. https://app.cochat.ai/papers/10.1038/nature07211
- The paper
- Bennett, M. R., Pang, W. L., Ostroff, N. A., Baumgartner, B. L., Nayak, S., Tsimring, L. S., & Hasty, J. (2008). Metabolic gene regulation in a dynamically changing environment. Nature. https://doi.org/10.1038/nature07211
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
