Comparison between effects of retroactivity and resource competition upon change in downstream reporter genes of synthetic genetic circuits

Takefumi Moriya, Tomohiro Yamaoka, Yuki Wakayama, Shotaro Ayukawa, Zicong Zhang, Masayuki Yamamura, Shinji Wakao, Daisuke Kiga

研究成果: Article

抄録

Reporter genes have contributed to advancements in molecular biology. Binding of an upstream regulatory protein to a downstream reporter promoter allows quantification of the activity of the upstream protein produced from the corresponding gene. In studies of synthetic biology, analyses of reporter gene activities ensure control of the cell with synthetic genetic circuits, as achieved using a combination of in silico and in vivo experiments. However, unexpected effects of downstream reporter genes on upstream regulatory genes may interfere with in vivo observations. This phenomenon is termed as retroactivity. Using in silico and in vivo experiments, we found that a different copy number of regulatory protein-binding sites in a downstream gene altered the upstream dynamics, suggesting retroactivity of reporters in this synthetic genetic oscillator. Furthermore, by separating the two sources of retroactivity (titration of the component and competition for degradation), we showed that, in the dual-feedback oscillator, the level of the fluorescent protein reporter competing for degradation with the circuits’ components is important for the stability of the oscillations. Altogether, our results indicate that the selection of reporter promoters using a combination of in silico and in vivo experiments is essential for the advanced design of genetic circuits.

元の言語English
記事番号30
ジャーナルLife
9
発行部数1
DOI
出版物ステータスPublished - 2019 3 1

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Reporter Genes
reporter genes
genes
Computer Simulation
resources
Genes
regulatory proteins
upstream
Networks (circuits)
gene
resource
promoter regions
Synthetic Biology
synthetic biology
Artificial Cells
proteins
Proteins
protein
degradation
protein binding

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics
  • Biochemistry, Genetics and Molecular Biology(all)
  • Space and Planetary Science
  • Palaeontology

これを引用

Comparison between effects of retroactivity and resource competition upon change in downstream reporter genes of synthetic genetic circuits. / Moriya, Takefumi; Yamaoka, Tomohiro; Wakayama, Yuki; Ayukawa, Shotaro; Zhang, Zicong; Yamamura, Masayuki; Wakao, Shinji; Kiga, Daisuke.

:: Life, 巻 9, 番号 1, 30, 01.03.2019.

研究成果: Article

Moriya, Takefumi ; Yamaoka, Tomohiro ; Wakayama, Yuki ; Ayukawa, Shotaro ; Zhang, Zicong ; Yamamura, Masayuki ; Wakao, Shinji ; Kiga, Daisuke. / Comparison between effects of retroactivity and resource competition upon change in downstream reporter genes of synthetic genetic circuits. :: Life. 2019 ; 巻 9, 番号 1.
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