ArticleACS synthetic biology2017
Synthetic Core Promoters as Universal Parts for Fine-Tuning Expression in Different Yeast Species.
Article in ACS synthetic biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 57 papers.
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Who cites it
57 citing papers in PubMed.
- Advances in Key Genetic Elements and Strategies for High-Yield Heterologous Protein Expression inJournal of fungi (Basel, Switzerland) · 2026Review
- Engineered microorganisms unlock a new era of diterpenoid biomanufacturing: recent advances and future perspectives.Bioresources and bioprocessing · 2026Review
- Biological parts in yeast synthetic biology: from regulatory elements to predictive design platforms.FEMS yeast research · 2026Review
- Deep Generative Model-Driven Design of Microbial Synthetic Promoters.Journal of microbiology and biotechnology · 2025Review
- RNA Polymerase III Promoters Compatible with CRISPR Gene Regulation inACS synthetic biology · 2025Article
- Promoter engineering for enhanced 3-hydroxypropionic acid production inSynthetic and systems biotechnology · 2025Article
- De novo promoter design method based on deep generative and dynamic evolution algorithm.Nucleic acids research · 2025Article
- Optimizing Yeast Surface-Displayed Unspecific Peroxygenase Production for Sustainable Biocatalysis.Bioengineering (Basel, Switzerland) · 2025Article
- Considerations for Domestication of Novel Strains of Filamentous Fungi.ACS synthetic biology · 2025Review
- Rational design and characterization of enhanced alcohol-inducible synthetic promoters inApplied and environmental microbiology · 2025Article
- Engineering artificial cross-species promoters with different transcriptional strengths.Synthetic and systems biotechnology · 2025Article
- Designing strong inducible synthetic promoters in yeasts.Nature communications · 2024Article
- Exploring the Promoter Generation and Prediction ofInternational journal of molecular sciences · 2024Article
- AI-Assisted Rational Design and Activity Prediction of Biological Elements for Optimizing Transcription-Factor-Based Biosensors.Molecules (Basel, Switzerland) · 2024Review
- CAPE: a deep learning framework with Chaos-Attention net for Promoter Evolution.Briefings in bioinformatics · 2024Article
- Bioinformatic Prediction and High Throughput In Vivo Screening to Identify Cis-Regulatory Elements for the Development of Algal Synthetic Promoters.ACS synthetic biology · 2024Article
- Promoter engineering enables precise metabolic regulation towards efficient β-elemene production inSynthetic and systems biotechnology · 2024Article
- Promoters in Pichia pastoris: A Toolbox for Fine-Tuned Gene Expression.Methods in molecular biology (Clifton, N.J.) · 2024Review
- Genetic tools for metabolic engineering ofEngineering microbiology · 2023Review
- Systematic sequence engineering enhances the induction strength of the glucose-regulated GTH1 promoter of Komagataella phaffii.Nucleic acids research · 2023Article
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Synthetic biology and metabolic engineering experiments frequently require the fine-tuning of gene expression to balance and optimize protein levels of regulators or metabolic enzymes. A key concept of synthetic biology is the development of modular parts that can be used in different contexts. Here, we have applied a computational multifactor design approach to generate de novo synthetic core promoters and 5' untranslated regions (UTRs) for yeast cells. In contrast to upstream cis-regulatory modules (CRMs), core promoters are typically not subject to specific regulation, making them ideal engineering targets for gene expression fine-tuning. 112 synthetic core promoter sequences were designed on the basis of the sequence/function relationship of natural core promoters, nucleosome occupancy and the presence of short motifs. The synthetic core promoters were fused to the Pichia pastoris AOX1 CRM, and the resulting activity spanned more than a 200-fold range (0.3% to 70.6% of the wild type AOX1 level). The top-ten synthetic core promoters with highest activity were fused to six additional CRMs (three in P. pastoris and three in Saccharomyces cerevisiae). Inducible CRM constructs showed significantly higher activity than constitutive CRMs, reaching up to 176% of natural core promoters. Comparing the activity of the same synthetic core promoters fused to different CRMs revealed high correlations only for CRMs within the same organism. These data suggest that modularity is maintained to some extent but only within the same organism. Due to the conserved role of eukaryotic core promoters, this rational design concept may be transferred to other organisms as a generic engineering tool.
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