ArticleNucleic acids research2021
Programmable gene regulation for metabolic engineering using decoy transcription factor binding sites.
Article in Nucleic acids research, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed, 45 citations in OpenAlex.
- Chemical Modification Strategies for Therapeutic Oligonucleotides: Mechanism Compatibility, Design Trade-Offs, and Translational Barriers.Molecules (Basel, Switzerland) · 2026Review
- Construction of synthetic protein-binding non-genetic DNA systems in living cells.Nature chemistry · 2026Article
- Model-guided design of regulatable promoters for synthetic biology.Current opinion in microbiology · 2026Review
- Modular and signal-responsive transcriptional regulation using CRISPRi-aided genetic switches in Escherichia coli.Journal of biological engineering · 2025Article
- Sequestration of gene products by decoys enhances precision in the timing of intracellular events.Scientific reports · 2024Article
- Lignin valorization to bioplastics with an aromatic hub metabolite-based autoregulation system.Nature communications · 2024Article
- Promising strategies employing nucleic acids as antimicrobial drugs.Molecular therapy. Nucleic acids · 2024Review
- Light-inducible protein degradation ineLife · 2024Article
- Design of a sorbitol-activated nitrogen metabolism-dependent regulatory system for redirection of carbon metabolism flow in Bacillus licheniformis.Nucleic acids research · 2023Article
- Advances in the optimization of central carbon metabolism in metabolic engineering.Microbial cell factories · 2023Review
- Development of a Transcriptional Factor PuuR-Based Putrescine-Specific Biosensor inBioengineering (Basel, Switzerland) · 2023Article
- Inducible plasmid copy number control for synthetic biology in commonly used E. coli strains.Nature communications · 2022Article
- A plasmid system with tunable copy number.Nature communications · 2022Article
- Engineering robust microorganisms for organic acid production.Journal of industrial microbiology & biotechnology · 2022Review
- Stabilization of antithetic control via molecular buffering.Journal of the Royal Society, Interface · 2022Article
- The transcription activator AtxA fromSynthetic biology (Oxford, England) · 2022Article
- Diverse role of decoys on emergence and precision of oscillations in a biomolecular clock.Biophysical journal · 2021Article
- A balancing act in transcription regulation by response regulators: titration of transcription factor activity by decoy DNA binding sites.Nucleic acids research · 2021Article
- Context-Dependent Stability and Robustness of Genetic Toggle Switches with Leaky Promoters.Life (Basel, Switzerland) · 2021Article
- PolyPurine Reverse Hoogsteen Hairpins Work as RNA Species for Gene Silencing.International journal of molecular sciences · 2021Article
Corrections and comments
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Transcription factor decoy binding sites are short DNA sequences that can titrate a transcription factor away from its natural binding site, therefore regulating gene expression. In this study, we harness synthetic transcription factor decoy systems to regulate gene expression for metabolic pathways in Escherichia coli. We show that transcription factor decoys can effectively regulate expression of native and heterologous genes. Tunability of the decoy can be engineered via changes in copy number or modifications to the DNA decoy site sequence. Using arginine biosynthesis as a showcase, we observed a 16-fold increase in arginine production when we introduced the decoy system to steer metabolic flux towards increased arginine biosynthesis, with negligible growth differences compared to the wild type strain. The decoy-based production strain retains high genetic integrity; in contrast to a gene knock-out approach where mutations were common, we detected no mutations in the production system using the decoy-based strain. We further show that transcription factor decoys are amenable to multiplexed library screening by demonstrating enhanced tolerance to pinene with a combinatorial decoy library. Our study shows that transcription factor decoy binding sites are a powerful and compact tool for metabolic engineering.
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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.