Difference between revisions of "Part:BBa K2675041"
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===Usage and Biology=== | ===Usage and Biology=== | ||
| − | The hexapeptide SAIRGA is the signalling molecule used for cell-to-cell communication [1]. To perform its quorum sensing function in the natural phi3T phage infection, SAIRGA needs to be secreted out of the cell. It is produced as an immature pre-pro-peptide, AimP ([[Part:BBa_K2279001|BBa_K2279001]] and [[Part:BBa_K2675001|BBa_K2675001]]), that upon secretion is cleaved extracellularly to remove the secretion signal and release the mature hexapeptide. The mature peptide then enters cells and binds to its receptor protein AimR ([[Part:BBa_K2279000|BBa_K2279000]] and [[Part:BBa_K2675000|BBa_K2675000]]). Binding of SAIRGA to AimR blocks the activator function of AimR that, in turn, facilitates a switch from lysogenic-to-lytic viral cycle. By acting as a negative regulator of AimR, the SAIRGA signal makes the lysogeny-to-lysis switch of phi3T phage dependent on the “quorum” of ''Bacillus'' cells. | + | The hexapeptide SAIRGA is the signalling molecule used for cell-to-cell communication [1]. To perform its quorum sensing function in the natural phi3T phage infection, SAIRGA needs to be secreted out of the cell. It is produced as an immature pre-pro-peptide, AimP ([[Part:BBa_K2279001|BBa_K2279001]] and [[Part:BBa_K2675001|BBa_K2675001]]), that upon secretion is cleaved extracellularly to remove the secretion signal and release the mature hexapeptide. The mature peptide then enters cells and binds to its receptor protein AimR ([[Part:BBa_K2279000|BBa_K2279000]] and [[Part:BBa_K2675000|BBa_K2675000]]). Binding of SAIRGA to AimR blocks the activator function of AimR that, in turn, facilitates a switch from lysogenic-to-lytic viral cycle. By acting as a negative regulator of AimR, the SAIRGA signal makes the lysogeny-to-lysis switch of phi3T phage dependent on the “quorum” of phi3T phage in ''Bacillus'' cells. |
In phi3T phage, SAIRGA is produced with specific secretion and protease-cleavage tags [1] that allow secretion and extracellular processing by ''Bacillus''. Since we had no further information about this protease, we could not investigate the ability of ''Escherichia coli'' to produce a similar enzyme. However, we decided to test if ''E. coli'' is able to interpret the secretion signal of ''Bacillus''. | In phi3T phage, SAIRGA is produced with specific secretion and protease-cleavage tags [1] that allow secretion and extracellular processing by ''Bacillus''. Since we had no further information about this protease, we could not investigate the ability of ''Escherichia coli'' to produce a similar enzyme. However, we decided to test if ''E. coli'' is able to interpret the secretion signal of ''Bacillus''. | ||
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To express the AimP in ''E. coli'', the sequence was codon optimized for ''E. coli'' DH5α, a specific RBSs ([[Part:BBa_K2675011|BBa_K2675011]]) was designed with the Salis RBS Calculator [2, 3] and the peptide was placed under the control of the constitutive strong promoter ([[Part:BBa_J23100|BBa_J23100]]) and of the strong terminator L3S2P21 ([[Part:BBa_K2675031|BBa_K2675031]]). Thus, this composite part ([[Part:BBa_K2675041|BBa_K2675041]]) was generated. | To express the AimP in ''E. coli'', the sequence was codon optimized for ''E. coli'' DH5α, a specific RBSs ([[Part:BBa_K2675011|BBa_K2675011]]) was designed with the Salis RBS Calculator [2, 3] and the peptide was placed under the control of the constitutive strong promoter ([[Part:BBa_J23100|BBa_J23100]]) and of the strong terminator L3S2P21 ([[Part:BBa_K2675031|BBa_K2675031]]). Thus, this composite part ([[Part:BBa_K2675041|BBa_K2675041]]) was generated. | ||
| − | This SAIRGA expression part did not | + | This SAIRGA expression part did not behave as predicted: it was not able to produce and release detectable levels of the mature hexapeptide SAIRGA in the culturing media of ''E. coli'' cells. |
For more information, please visit http://2018.igem.org/Team:Evry_Paris-Saclay/Peptide. | For more information, please visit http://2018.igem.org/Team:Evry_Paris-Saclay/Peptide. | ||
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| + | <h2 style="font-weight:800;">REFERENCES</h2> | ||
| + | <p style="font-size:15px;" class="bibliographie">[1] Erez Z, Steinberger-Levy I, Shamir M, Doron S, Stokar-Avihail A, Peleg Y, Melamed S, Leavitt A, Savidor A, Albeck S, Amitai G, Sorek R. Communication between viruses guides lysis-lysogeny decisions. Nature (2017) 541, 488-493.</p> | ||
| + | <p style="font-size:15px;" class="bibliographie">[2] Espah Borujeni A, Channarasappa AS, Salis HM. Translation rate is controlled by coupled trade-offs between site accessibility, selective RNA unfolding and sliding at upstream standby sites. Nucleic Acids Res (2014) 42, 2646-2659.</p> | ||
| + | <p style="font-size:15px;" class="bibliographie">[3] Salis HM, Mirsky EA, Voigt CA. Automated design of synthetic ribosome binding sites to control protein expression. Nat Biotechnol (2009) 27, 946-50.</p> | ||
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Revision as of 19:42, 15 October 2018
AimP of phage phi3T expression cassette
This part is the immature arbitrium peptide of phage phi3T (BBa_K2675001), equipped by a synthetic RBS (BBa_K2675011) and placed under the control of the constitutive strong promoter BBa_J23100 and of the strong terminator L3S2P21 (BBa_K2675031).
Usage and Biology
The hexapeptide SAIRGA is the signalling molecule used for cell-to-cell communication [1]. To perform its quorum sensing function in the natural phi3T phage infection, SAIRGA needs to be secreted out of the cell. It is produced as an immature pre-pro-peptide, AimP (BBa_K2279001 and BBa_K2675001), that upon secretion is cleaved extracellularly to remove the secretion signal and release the mature hexapeptide. The mature peptide then enters cells and binds to its receptor protein AimR (BBa_K2279000 and BBa_K2675000). Binding of SAIRGA to AimR blocks the activator function of AimR that, in turn, facilitates a switch from lysogenic-to-lytic viral cycle. By acting as a negative regulator of AimR, the SAIRGA signal makes the lysogeny-to-lysis switch of phi3T phage dependent on the “quorum” of phi3T phage in Bacillus cells.
In phi3T phage, SAIRGA is produced with specific secretion and protease-cleavage tags [1] that allow secretion and extracellular processing by Bacillus. Since we had no further information about this protease, we could not investigate the ability of Escherichia coli to produce a similar enzyme. However, we decided to test if E. coli is able to interpret the secretion signal of Bacillus.
To express the AimP in E. coli, the sequence was codon optimized for E. coli DH5α, a specific RBSs (BBa_K2675011) was designed with the Salis RBS Calculator [2, 3] and the peptide was placed under the control of the constitutive strong promoter (BBa_J23100) and of the strong terminator L3S2P21 (BBa_K2675031). Thus, this composite part (BBa_K2675041) was generated.
This SAIRGA expression part did not behave as predicted: it was not able to produce and release detectable levels of the mature hexapeptide SAIRGA in the culturing media of E. coli cells.
For more information, please visit http://2018.igem.org/Team:Evry_Paris-Saclay/Peptide.
REFERENCES
[1] Erez Z, Steinberger-Levy I, Shamir M, Doron S, Stokar-Avihail A, Peleg Y, Melamed S, Leavitt A, Savidor A, Albeck S, Amitai G, Sorek R. Communication between viruses guides lysis-lysogeny decisions. Nature (2017) 541, 488-493.
[2] Espah Borujeni A, Channarasappa AS, Salis HM. Translation rate is controlled by coupled trade-offs between site accessibility, selective RNA unfolding and sliding at upstream standby sites. Nucleic Acids Res (2014) 42, 2646-2659.
[3] Salis HM, Mirsky EA, Voigt CA. Automated design of synthetic ribosome binding sites to control protein expression. Nat Biotechnol (2009) 27, 946-50.
Sequence and Features
- 10COMPATIBLE WITH RFC[10]
- 12INCOMPATIBLE WITH RFC[12]Illegal NheI site found at 7
Illegal NheI site found at 30 - 21COMPATIBLE WITH RFC[21]
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000COMPATIBLE WITH RFC[1000]