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Team:Grenoble/Biology/Network
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Revision as of 14:23, 25 September 2012
Network details
Our system is divided in two modules:- a signaling module
- an amplification module
The signaling module
The signaling module allows our bacteria strain to integrate the input signal = the pathogene presence.This is a modelized module.
The idea behind this module comes from the iGEM London Imperial College 2010 Team's work on Parasight [1].
Staphylococcus aureus secretes the exfoliative toxin B [2] which cleaves a specific amino-acids sequence (Desmoglein 1). This specific sequence can be used as a linker between a membrane protein and a dipeptide.
Once S. aureus is present, the linker is cut by the toxin and the dipeptide is released.
The dipeptide binds its receptor which was engineered [3] [4] by the team:
- the extracellular part of Tap [5] is a dipeptide receptor involved in the chemotaxism
- the intracellular part of EnvZ [6] is a histidine kinase involved in the osmoregulation
Once the dipeptide binds the Tap part [7], the intracellular EnvZ part allows the phosphorylation of OmpR [8] [9], which is a constitutively produced transcriptional activator.
OmpR phosphorylation's allows the activation of the OmpC promoter[10].
Amplification module
The amplification module allows our bacteria to amplify the input signal and to produce an output signal = fluorescence.This is also one of our module of modeling.
Internal amplification
The activation of the OmpC promoter allows the production of Adenyl cyclase [11]. Adenyl cyclase catalyses the conversion of ATP (Adenosine Tri-Phosphate) into cAMP (cyclic Adenosine Mono-Phosphate).
The binding of cAMP to CRP (C-reactive protein) leads to the production of AraC by activating the pMalT promoter [12].
In the presence of arabinose, AraC and cAMP-CRP, cooperatively activate the pAraBAD promoter [13], thus forming an "AND" gate. This allows the production of:
- Adenyl cyclase which reproduces cAMP, forming thus an amplification loop
- GFP (Green Fluorescent Protein) = our output signal
External amplification
When a bacterium detects S. aureus, it produces a several molecules of GFP and evenmore cAMP. cAMP diffuses through the membrane and activates the amplification loop in all the neighbouring bacteria [14], which triggers the production of GFP and cAMP.This leads to an entire population which produces GFP where only a bacterium detected the pathogen in the first place:
References
- [1] Imperial college 2010's detection module
- [2] Masayuki Amagi, Takayuki Yamaguchi, Yasushi Hanakawa, Koji Nishifuji, Motoyuki Sugai, John R. Stanley. Staphylococcal Exfoliative Toxin B Specifically Cleaves Desmoglein 1. (2002). The Journal of Investigative Dermatology. Vol. 118, No. 5.
- [3] J W Baumgartner, C Kim, R E Brissette, M Inouye, C Park, G L Hazelbauer. (1994). Transmembrane signalling by a hybrid protein: communication from the domain of chemoreceptor Trg that recognizes sugar-binding proteins to the kinase/phosphatase domain of osmosensors EnvZ. Journal of Bacteriology. Vol. 176, No. 4.
- [4] Siromi Weerasuriya, Brian M. Schneider, Michael D. Manson. (1998). Chimeric Chemoreceptors in Escherichia coli: Signaling properties of Tar-Tap and Tap-Tar Hybrids. Journal of Bacteriology. Vol. 180, No. 4, p. 914-920.
- [5] Polypeptide: Tap
- [6] Protein: EnvZ sensory histidine kinase
- [7] Michael D. Manson, Volker Blank, Gabriele Brade. (1986). Peptide chemotaxis in E. coli involves the Tap signal transducer and the dipeptide permease. Nature. Vol. 321.
- [8] Sheng Jian Cai, Masayori Inouye. (2002). EnvZ-OmpR Interaction and Osmoregulation in Escherichia coli. The Journal of Biological Chemistry. Vol. 277, No. 27, p.24155-24161.
- [9] ompR expression
- [10] Sumio Maeda, Katsuhiko Takayanagi, Yoshifumi Nishimura, Takemi Maruyama, Kou Sato, and Takeshi Mizuno. (1991). Activation of the Osmoregulated ompC Gene by the OmpR Protein in Escherichia coli: A Study Involving Synthetic OmpR-Binding Sequences. Journal of Biochemistry. 110, 324-327.
- [11] Enzyme: adenyl cyclase
- [12] Transcription Unit: malT
- [13] Transcription Unit: araBAD
- [14] Balagaddé F. K., Song H., Ozaki J., Collins C. H., Barnet M., Arnold F. H., Quake S. R., You L. (2008). A synthetic Escherichia coli predator-prey ecosystem. Molecular Systems Biology. 4:187.
