ArticleJournal of biological engineering2017
Study of in vitro transcriptional binding effects and noise using constitutive promoters combined with UP element sequences in
Article in Journal of biological engineering, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed, 43 citations in OpenAlex.
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- Engineering artificial cross-species promoters with different transcriptional strengths.Synthetic and systems biotechnology · 2025Article
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- Deep Learning-Assisted Design of Novel Promoters inAdvanced genetics (Hoboken, N.J.) · 2023Article
- A versatile regulatory toolkit of arabinose-inducible artificial transcription factors for Enterobacteriaceae.Communications biology · 2023Article
- Optimization of Constitutive Promoters Using a Promoter-Trapping Vector inInternational journal of molecular sciences · 2023Article
- CRISPRi-mediated tunable control of gene expression level with engineered single-guide RNA in Escherichia coli.Nucleic acids research · 2023Article
- Circuit-guided population acclimation of a synthetic microbial consortium for improved biochemical production.Nature communications · 2022Article
- Review
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- Live Biosensors for Ultrahigh-Throughput Screening of Antimicrobial Activity against Gram-Negative Bacteria.Antibiotics (Basel, Switzerland) · 2021Article
- Using fluorescence flow cytometry data for single-cell gene expression analysis in bacteria.PloS one · 2020Article
- Recent advances in genetic engineering tools based on synthetic biology.Journal of microbiology (Seoul, Korea) · 2020Review
- Design and synthesis of synthetic UP elements for modulation of gene expression inSynthetic and systems biotechnology · 2019Article
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundUP elements (upstream element) are DNA sequences upstream of a promoter that interact with the α-subunit of RNA polymerase (RNAP) and can affect transcription by altering the binding RNAP to DNA. However, details of UP element and binding affinity effects on transcriptional strength are unclear.
resultsHere, we investigated the effects of UP element sequences on gene transcription, binding affinity, and gene expression noise. Addition of UP elements resulted in increased gene expression (maximum 95.7-fold increase) and reduced gene expression noise (8.51-fold reduction). Half UP element sequences at the proximal subsite has little effect on transcriptional strength despite increasing binding affinity by 2.28-fold. In vitro binding assays were used to determine dissociation constants (K
conclusionsThese results demonstrate the utility of UP elements and provide mechanistic insight into the functional relationship between binding affinity and transcription. Given the centrality of gene expression via transcription to biology, additional insight into transcriptional mechanisms can foster both fundamental and applied research. In particular, knowledge of the DNA sequence-specific effects on expression strength can aid in promoter engineering for different organisms and for metabolic engineering to balance pathway fluxes.
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