ArticleMicrobial biotechnology2019
Deciphering global gene expression and regulation strategy in Escherichia coli during carbon limitation.
Article in Microbial biotechnology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
14 citing papers in PubMed.
- A tripartite RpoS-CRP-cAMP-Cra circuit orchestrates metabolic reprogramming during stress adaptation.Nucleic acids research · 2026Article
- Kinetic modeling of terpenoid production in E. coli: insights into subpopulation emergence and process optimization.Microbial cell factories · 2025Article
- Transcriptional mechanism by which IS5 activates the fucAO operon in Escherichia coli.Nucleic acids research · 2025Article
- GnuR Represses the Expression of Glucose and Gluconate Catabolism in Pseudomonas putida KT2440.Microbial biotechnology · 2024Article
- Comprehensive Characterization ofInternational journal of molecular sciences · 2024Article
- Gut bacterial metabolism contributes to host global purine homeostasis.Cell host & microbe · 2023Article
- Revisiting Fur Regulon Leads to a Comprehensive Understanding of Iron and Fur Regulation.International journal of molecular sciences · 2023Article
- Degradation of Exogenous Fatty Acids inBiomolecules · 2022Review
- Small RNA GcvB Regulates Oxidative Stress Response ofAntioxidants (Basel, Switzerland) · 2021Article
- Escherichia coli segments its controls on carbon-dependent gene expression into global and specific regulations.Microbial biotechnology · 2021Article
- Gain of SpontaneousFrontiers in bioengineering and biotechnology · 2021Article
- One-carbon metabolism, folate, zinc and translation.Microbial biotechnology · 2020Article
- Why Nature Chose Potassium.Journal of molecular evolution · 2019Review
- Deciphering global gene expression and regulation strategy in Escherichia coli during carbon limitation.Microbial biotechnology · 2019Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Despite decades of studies meant to analyse the bacterial response to carbon limitation, we still miss a high-resolution overview of the situation. All gene expression changes observed in such conditions cannot solely be accounted for by the global regulator Crp either free or bound to its effector, cyclic AMP. Here, for the first time, we evaluated the response of both CDS (protein-coding sequence) and ncRNA (non-coding RNA) genes to carbon limitation, revealed cellular functions of differentially expressed genes systematically, quantified the contribution of Crp-cAMP and other factors to regulation and deciphered regulation strategies at a genomewide scale. Approximately one-third of the differentially expressed genes we identified responded to Crp-cAMP via its direct or indirect control, while the remaining genes were subject to growth rate-dependent control or were controlled by other regulators, especially RpoS. Importantly, gene regulation mechanisms can be established by expression pattern studies. Here, we propose a comprehensive picture of how cells respond to carbon scarcity. The global regulation strategies thus exposed illustrate that the response of cell to carbon scarcity is not limited to maintaining sufficient carbon metabolism via cAMP signalling while the main response is to adjust metabolism to cope with a slow growth rate.
Indexed as
Identifiers
What OpenQuestion holds
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.