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Characterization and modeling of transcriptional cross-regulation in Acinetobacter baylyi ADP1

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Characterization and modeling of transcriptional cross-regulation in Acinetobacter baylyi ADP1. / Zhang, Dayi; Zhao, Yun; He, Yi; Wang, Yun; Zhao, Yiyu; Zheng, Yi; Wei, Xia; Zhang, Litong; Li, Yuzhen; Jin, Tao; Wu, Lin; Wang, Hui; Davison, Paul A.; Xu, Junguang; Huang, Wei E.

In: ACS Synthetic Biology, Vol. 1, No. 7, 07.2012, p. 274-283.

Research output: Contribution to journalJournal articlepeer-review

Harvard

Zhang, D, Zhao, Y, He, Y, Wang, Y, Zhao, Y, Zheng, Y, Wei, X, Zhang, L, Li, Y, Jin, T, Wu, L, Wang, H, Davison, PA, Xu, J & Huang, WE 2012, 'Characterization and modeling of transcriptional cross-regulation in Acinetobacter baylyi ADP1', ACS Synthetic Biology, vol. 1, no. 7, pp. 274-283. https://doi.org/10.1021/sb3000244

APA

Zhang, D., Zhao, Y., He, Y., Wang, Y., Zhao, Y., Zheng, Y., Wei, X., Zhang, L., Li, Y., Jin, T., Wu, L., Wang, H., Davison, P. A., Xu, J., & Huang, W. E. (2012). Characterization and modeling of transcriptional cross-regulation in Acinetobacter baylyi ADP1. ACS Synthetic Biology, 1(7), 274-283. https://doi.org/10.1021/sb3000244

Vancouver

Zhang D, Zhao Y, He Y, Wang Y, Zhao Y, Zheng Y et al. Characterization and modeling of transcriptional cross-regulation in Acinetobacter baylyi ADP1. ACS Synthetic Biology. 2012 Jul;1(7):274-283. https://doi.org/10.1021/sb3000244

Author

Zhang, Dayi ; Zhao, Yun ; He, Yi ; Wang, Yun ; Zhao, Yiyu ; Zheng, Yi ; Wei, Xia ; Zhang, Litong ; Li, Yuzhen ; Jin, Tao ; Wu, Lin ; Wang, Hui ; Davison, Paul A. ; Xu, Junguang ; Huang, Wei E. / Characterization and modeling of transcriptional cross-regulation in Acinetobacter baylyi ADP1. In: ACS Synthetic Biology. 2012 ; Vol. 1, No. 7. pp. 274-283.

Bibtex

@article{873a8c4db064429b965959c55e3a653d,
title = "Characterization and modeling of transcriptional cross-regulation in Acinetobacter baylyi ADP1",
abstract = "Synthetic biology involves reprogramming and engineering of regulatory genes in innovative ways for the implementation of novel tasks. Transcriptional gene regulation systems induced by small molecules in prokaryotes provide a rich source for logic gates. Cross-regulation, whereby a promoter is activated by different molecules or different promoters are activated by one molecule, can be used to design an OR-gate and achieve cross-talk between gene networks in cells. Acinetobacter baylyi ADP1 is naturally transformable, readily editing its chromosomal DNA, which makes it a convenient chassis for synthetic biology. The catabolic genes for salicylate, benzoate, and catechol metabolism are located within a supraoperonic cluster (-sal-are-ben-cat-) in the chromosome of A. baylyi ADP 1, which are separately regulated by LysR-type transcriptional regulators (LTTRs). ADP1-based biosensors were constructed in which salA, benA, and catB were fused with a reporter gene cassette luxCDABE under the separate control of SalR, BenM, and CatM regulators. Salicylate, benzoate, catechol, and associated metabolites were found to mediate cross-regulation among sal, ben, and cat operons. A new mathematical model was developed by considering regulator-inducer binding and promoter activation as two separate steps. This model fits the experimental data well and is shown to predict cross-regulation performance.",
keywords = "GENES, ESCHERICHIA-COLI, OPERON, benzoate, catechol, salicylate, Acinetobacter baylyi ADP1, ACTIVATOR, LysR-type gene regulation, TRANSFORMATION, STRAIN ADP1, repressor, PROMOTER, DEGRADATION, BACTERIUM, cross-regulation, mathematic model, SALICYLATE",
author = "Dayi Zhang and Yun Zhao and Yi He and Yun Wang and Yiyu Zhao and Yi Zheng and Xia Wei and Litong Zhang and Yuzhen Li and Tao Jin and Lin Wu and Hui Wang and Davison, {Paul A.} and Junguang Xu and Huang, {Wei E.}",
year = "2012",
month = jul,
doi = "10.1021/sb3000244",
language = "English",
volume = "1",
pages = "274--283",
journal = "ACS Synthetic Biology",
issn = "2161-5063",
publisher = "American Chemical Society",
number = "7",

}

RIS

TY - JOUR

T1 - Characterization and modeling of transcriptional cross-regulation in Acinetobacter baylyi ADP1

AU - Zhang, Dayi

AU - Zhao, Yun

AU - He, Yi

AU - Wang, Yun

AU - Zhao, Yiyu

AU - Zheng, Yi

AU - Wei, Xia

AU - Zhang, Litong

AU - Li, Yuzhen

AU - Jin, Tao

AU - Wu, Lin

AU - Wang, Hui

AU - Davison, Paul A.

AU - Xu, Junguang

AU - Huang, Wei E.

PY - 2012/7

Y1 - 2012/7

N2 - Synthetic biology involves reprogramming and engineering of regulatory genes in innovative ways for the implementation of novel tasks. Transcriptional gene regulation systems induced by small molecules in prokaryotes provide a rich source for logic gates. Cross-regulation, whereby a promoter is activated by different molecules or different promoters are activated by one molecule, can be used to design an OR-gate and achieve cross-talk between gene networks in cells. Acinetobacter baylyi ADP1 is naturally transformable, readily editing its chromosomal DNA, which makes it a convenient chassis for synthetic biology. The catabolic genes for salicylate, benzoate, and catechol metabolism are located within a supraoperonic cluster (-sal-are-ben-cat-) in the chromosome of A. baylyi ADP 1, which are separately regulated by LysR-type transcriptional regulators (LTTRs). ADP1-based biosensors were constructed in which salA, benA, and catB were fused with a reporter gene cassette luxCDABE under the separate control of SalR, BenM, and CatM regulators. Salicylate, benzoate, catechol, and associated metabolites were found to mediate cross-regulation among sal, ben, and cat operons. A new mathematical model was developed by considering regulator-inducer binding and promoter activation as two separate steps. This model fits the experimental data well and is shown to predict cross-regulation performance.

AB - Synthetic biology involves reprogramming and engineering of regulatory genes in innovative ways for the implementation of novel tasks. Transcriptional gene regulation systems induced by small molecules in prokaryotes provide a rich source for logic gates. Cross-regulation, whereby a promoter is activated by different molecules or different promoters are activated by one molecule, can be used to design an OR-gate and achieve cross-talk between gene networks in cells. Acinetobacter baylyi ADP1 is naturally transformable, readily editing its chromosomal DNA, which makes it a convenient chassis for synthetic biology. The catabolic genes for salicylate, benzoate, and catechol metabolism are located within a supraoperonic cluster (-sal-are-ben-cat-) in the chromosome of A. baylyi ADP 1, which are separately regulated by LysR-type transcriptional regulators (LTTRs). ADP1-based biosensors were constructed in which salA, benA, and catB were fused with a reporter gene cassette luxCDABE under the separate control of SalR, BenM, and CatM regulators. Salicylate, benzoate, catechol, and associated metabolites were found to mediate cross-regulation among sal, ben, and cat operons. A new mathematical model was developed by considering regulator-inducer binding and promoter activation as two separate steps. This model fits the experimental data well and is shown to predict cross-regulation performance.

KW - GENES

KW - ESCHERICHIA-COLI

KW - OPERON

KW - benzoate

KW - catechol

KW - salicylate

KW - Acinetobacter baylyi ADP1

KW - ACTIVATOR

KW - LysR-type gene regulation

KW - TRANSFORMATION

KW - STRAIN ADP1

KW - repressor

KW - PROMOTER

KW - DEGRADATION

KW - BACTERIUM

KW - cross-regulation

KW - mathematic model

KW - SALICYLATE

U2 - 10.1021/sb3000244

DO - 10.1021/sb3000244

M3 - Journal article

VL - 1

SP - 274

EP - 283

JO - ACS Synthetic Biology

JF - ACS Synthetic Biology

SN - 2161-5063

IS - 7

ER -