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A sigma factor toolbox for orthogonal gene expression in Escherichia coli

(2018) NUCLEIC ACIDS RESEARCH. 46(4). p.2133-2144
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Abstract
Synthetic genetic sensors and circuits enable programmable control over timing and conditions of gene expression and, as a result, are increasingly incorporated into the control of complex and multi-gene pathways. Size and complexity of genetic circuits are growing, but stay limited by a shortage of regulatory parts that can be used without interference. Therefore, orthogonal expression and regulation systems are needed to minimize undesired crosstalk and allow for dynamic control of separate modules. This work presents a set of orthogonal expression systems for use in Escherichia coli based on heterologous sigma factors from Bacillus subtilis that recognize specific promoter sequences. Up to four of the analyzed sigma factors can be combined to function orthogonally between each other and toward the host. Additionally, the toolbox is expanded by creating promoter libraries for three sigma factors without loss of their orthogonal nature. As this set covers a wide range of transcription initiation frequencies, it enables tuning of multiple outputs of the circuit in response to different sensory signals in an orthogonal manner. This sigma factor toolbox constitutes an interesting expansion of the synthetic biology toolbox and may contribute to the assembly of more complex synthetic genetic systems in the future.
Keywords
EXTRACYTOPLASMIC-FUNCTION SIGMA(X), BACILLUS-SUBTILIS, RNA-POLYMERASE, SYNTHETIC BIOLOGY, DIRECTED EVOLUTION, BIOFUEL PRODUCTION, CELL-ENVELOPE, IN-VIVO, TRANSCRIPTION, PATHWAY

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Citation

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MLA
Bervoets, Indra, Maarten Van Brempt, Katleen Van Nerom, et al. “A Sigma Factor Toolbox for Orthogonal Gene Expression in Escherichia Coli.” NUCLEIC ACIDS RESEARCH 46.4 (2018): 2133–2144. Print.
APA
Bervoets, I., Van Brempt, M., Van Nerom, K., Van Hove, B., Maertens, J., De Mey, M., & Charlier, D. (2018). A sigma factor toolbox for orthogonal gene expression in Escherichia coli. NUCLEIC ACIDS RESEARCH, 46(4), 2133–2144.
Chicago author-date
Bervoets, Indra, Maarten Van Brempt, Katleen Van Nerom, Bob Van Hove, Jo Maertens, Marjan De Mey, and Daniel Charlier. 2018. “A Sigma Factor Toolbox for Orthogonal Gene Expression in Escherichia Coli.” Nucleic Acids Research 46 (4): 2133–2144.
Chicago author-date (all authors)
Bervoets, Indra, Maarten Van Brempt, Katleen Van Nerom, Bob Van Hove, Jo Maertens, Marjan De Mey, and Daniel Charlier. 2018. “A Sigma Factor Toolbox for Orthogonal Gene Expression in Escherichia Coli.” Nucleic Acids Research 46 (4): 2133–2144.
Vancouver
1.
Bervoets I, Van Brempt M, Van Nerom K, Van Hove B, Maertens J, De Mey M, et al. A sigma factor toolbox for orthogonal gene expression in Escherichia coli. NUCLEIC ACIDS RESEARCH. 2018;46(4):2133–44.
IEEE
[1]
I. Bervoets et al., “A sigma factor toolbox for orthogonal gene expression in Escherichia coli,” NUCLEIC ACIDS RESEARCH, vol. 46, no. 4, pp. 2133–2144, 2018.
@article{8545674,
  abstract     = {Synthetic genetic sensors and circuits enable programmable control over timing and conditions of gene expression and, as a result, are increasingly incorporated into the control of complex and multi-gene pathways. Size and complexity of genetic circuits are growing, but stay limited by a shortage of regulatory parts that can be used without interference. Therefore, orthogonal expression and regulation systems are needed to minimize undesired crosstalk and allow for dynamic control of separate modules. This work presents a set of orthogonal expression systems for use in Escherichia coli based on heterologous sigma factors from Bacillus subtilis that recognize specific promoter sequences. Up to four of the analyzed sigma factors can be combined to function orthogonally between each other and toward the host. Additionally, the toolbox is expanded by creating promoter libraries for three sigma factors without loss of their orthogonal nature. As this set covers a wide range of transcription initiation frequencies, it enables tuning of multiple outputs of the circuit in response to different sensory signals in an orthogonal manner. This sigma factor toolbox constitutes an interesting expansion of the synthetic biology toolbox and may contribute to the assembly of more complex synthetic genetic systems in the future.},
  author       = {Bervoets, Indra and Van Brempt, Maarten and Van Nerom, Katleen and Van Hove, Bob and Maertens, Jo and De Mey, Marjan and Charlier, Daniel},
  issn         = {0305-1048},
  journal      = {NUCLEIC ACIDS RESEARCH},
  keywords     = {EXTRACYTOPLASMIC-FUNCTION SIGMA(X),BACILLUS-SUBTILIS,RNA-POLYMERASE,SYNTHETIC BIOLOGY,DIRECTED EVOLUTION,BIOFUEL PRODUCTION,CELL-ENVELOPE,IN-VIVO,TRANSCRIPTION,PATHWAY},
  language     = {eng},
  number       = {4},
  pages        = {2133--2144},
  title        = {A sigma factor toolbox for orthogonal gene expression in Escherichia coli},
  url          = {http://dx.doi.org/10.1093/nar/gky010},
  volume       = {46},
  year         = {2018},
}

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