ArticleNature communications2017
Programming mRNA decay to modulate synthetic circuit resource allocation.
Article in Nature communications, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
What it found
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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
31 citing papers in PubMed.
- Resource Competition and Growth Dilution Modulate Synthetic Gene Cascade Dynamics.ACS synthetic biology · 2026Article
- From Negative Feedback to Integrated Control: Recombinase-Based Strategies for Mitigating Resource Competition.Methods in molecular biology (Clifton, N.J.) · 2026Article
- CRISPRi-Linked Multimodule Negative Feedback Loops to Address Winner-Take-All Resource Competition.ACS synthetic biology · 2025Article
- Integrating recombinase-based feedback and feedforward control for optimal resource decoupling.Nucleic acids research · 2025Article
- CRISPRi-Linked Multi-Module Negative Feedback Loops to Address Winner-Take-All Resource Competition.bioRxiv : the preprint server for biology · 2025Article
- Metabolic engineering for single-cell protein production from renewable feedstocks and its applications.Advanced biotechnology · 2024Review
- Context-dependent redesign of robust synthetic gene circuits.Trends in biotechnology · 2024Review
- Selective RNA Processing and Stabilization are Multi-Layer and Stoichiometric Regulators of Gene Expression in Escherichia coli.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2023Article
- Engineering resource allocation in artificially minimized cells: Is genome reduction the best strategy?Microbial biotechnology · 2023Article
- Stability, robustness, and containment: preparing synthetic biology for real-world deployment.Current opinion in biotechnology · 2023Review
- Quantifying heterologous gene expression during ectopic MazF production in Escherichia coli.BMC research notes · 2022Article
- Hardware, Software, and Wetware Codesign Environment for Synthetic Biology.Biodesign research · 2022Review
- Generating dynamic gene expression patterns without the need for regulatory circuits.PloS one · 2022Article
- The world of ribonucleases from pseudomonads: a short trip through the main features and singularities.Microbial biotechnology · 2021Review
- Understanding and mathematical modelling of cellular resource allocation in microorganisms: a comparative synthesis.BMC bioinformatics · 2021Review
- Subcellular Architecture of themBio · 2021Article
- Developing a pathway-independent and full-autonomous global resource allocation strategy to dynamically switching phenotypic states.Nature communications · 2020Article
- Predictive biology: modelling, understanding and harnessing microbial complexity.Nature reviews. Microbiology · 2020Review
- Topology-dependent interference of synthetic gene circuit function by growth feedback.Nature chemical biology · 2020Article
- Trade-offs between gene expression, growth and phenotypic diversity in microbial populations.Current opinion in biotechnology · 2020Review
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Authors and funding
6 authors.
Funding
Abstract
Synthetic circuits embedded in host cells compete with cellular processes for limited intracellular resources. Here we show how funnelling of cellular resources, after global transcriptome degradation by the sequence-dependent endoribonuclease MazF, to a synthetic circuit can increase production. Target genes are protected from MazF activity by recoding the gene sequence to eliminate recognition sites, while preserving the amino acid sequence. The expression of a protected fluorescent reporter and flux of a high-value metabolite are significantly enhanced using this genome-scale control strategy. Proteomics measurements discover a host factor in need of protection to improve resource redistribution activity. A computational model demonstrates that the MazF mRNA-decay feedback loop enables proportional control of MazF in an optimal operating regime. Transcriptional profiling of MazF-induced cells elucidates the dynamic shifts in transcript abundance and discovers regulatory design elements. Altogether, our results suggest that manipulation of cellular resource allocation is a key control parameter for synthetic circuit design.
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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.