Difference between revisions of "Part:BBa K3606916:Design"

 
 
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===Design Notes===
 
===Design Notes===
−
tba
+
The promoter luxpR is activated by a complex of which the formation requires both enough expression of luxI and luxR. When the population of our bacteria is low,the amount of the complex is not enough, thus the luxpR promoter cannot initiate expression of downstream genes.
 +
When the population of bacteria reaches a certain level, the AHL-luxR triggers the luxpR promoter, so that our engineered probiotics will express and secrete CaAP and play a role in facilitating calcium absorption.
 +
See more information about luxI-luxR-luxpR regulating system on BBa_K3606100. tetR regulate ptetR with tetracycline altogether.
 +
<h2>Methods:</h2>
 +
In order to prove that McbABCDEFG does have an effective antibacterial effect as well as McbEFG can protect the engineered bacteria themselves and help the secretion of antimicrobial peptides more effectively, we designed the following experiment:
  
 +
We mixed WT E.coli (expressing GFP driven by plac) and E.coli with mcbABCD-mcbEFG-ptetR in different ratios (5:7 20:7 50:7), and measured the OD value of the bacteria two hours after adding an inducer, which can be used to reflect the antibacterial effect of antimicrobial peptides. We followed the same method as above to mix WT E. coli and E.coli with merely mcbABCD, induce and measure the OD value.
 +
[[File: T--Fudan--img_flowchart1.png|none|600px|thumb]]
 +
[[File: T--Fudan--flowchart_kanamp.png|none|600px|thumb]]
 +
<h2>Results:</h2>
 +
We constructed the plasmid and successfully expressed the system.
 +
[[File: T--Fudan--5mix7.jpeg|none|400px|thumb|Figure1. MEFL/particle for different Px and PxAD when the ratio of mixure(WT:Px=5:7)]]
 +
[[File:T--Fudan--20mix7.jpeg|none|400px|thumb|Figure2. MEFL/particle for different Px and PxAD when the ratio of mixure(WT:Px=20:7) ]]
 +
[[File:T--Fudan--50mix7.jpeg|none|400px|thumb|Figure3. MEFL/particle for different Px and PxAD when the ratio of mixure(WT:Px=50:7)]]
  
 +
We could see an overall decrease of GFP expression in nearly all groups cocultured with P1 or P2AD than the control group which only contains WT, indicating that the antimicrobial peptide(MccB17) encoded by mcbABCD does have a negative effect on over microbial. In this case, the living status of WT cells and its function in creating GFP is strongly restricted by the toxic environment, proving that our part mcbABCD has worked successfully.
  
 +
While inside each paired group, there clearly are a better inhibition effect in P1 group than P1AD group, as the MEFL/particle is much lower in the P1 group than the P1AD group when driven by certain promoters. This shows that the immunity function of mcbEFG is working successfully, as the E.coli expressing mcbEFG can help the engineered strain to survive with efflux exporting the toxic peptide, as well as better killing off other strains to gain survival advantage.
 +
 +
It is worth noting that when the mixing ratio of WT E. coli and McbABCDEFG-expressing bacteria is 50:7, the OD values of each group are very close to those of the control group (only induced WT E. coli). This shows that when the concentration of the engineered bacteria is very low, the antimicrobial peptides are difficult to exert antibacterial effect and the engineered bacteria have no competitive advantage.
 +
 +
[[File: T--Fudan--AUP21.jpeg|none|400px|thumb|Figure4. Calculated Bacteria Counts (a.u.) Calculated Bacteria Counts when the ratio of mixure(Px/PxAD:WT=1:1)]]
 +
 +
We could see the population increase are not significant in total over time, yet WT grows rather fast at first in the P2AD group, indicating its lack of immunity part mcbEFG can lead to the death of engineered E.coli. more, thus shows less restrain on the WT cells. Yet, as mccb17 accumulates, a clear decrease can be observed when time extends in both P2 and P2AD, proving our antimicrobial peptide expressing system are working to help the engineered E.coli. gain better survival advantage.
 +
 +
 +
<h2>Further Application:</h2>
 +
For futher application, this part expresses antimicrobial peptide(mccb17) as well as providing immunity to create survival advantage for the engineered strain. These part are especially useful to be expressed in vivo because research has proved that it can also ease the inflammation in intestine by limiting the expansion of related pathogens and pathobionts.
 +
 +
<h2>References:</h2>
 +
[1] Collin F, Maxwell A. The Microbial Toxin Microcin B17: Prospects for the Development of New Antibacterial Agents. J Mol Biol. 2019;431(18):3400–3426. doi:10.1016/j.jmb.2019.05.050
 +
 +
[2] S. Duquesne, D. Destoumieux-Garzón, J. Peduzzi, S. Rebuffat. Microcins, gene-encoded antibacterial peptides from enterobacteria
 +
 +
[3] Sassone-Corsi M, Nuccio SP, Liu H, Hernandez D, Vu CT, Takahashi AA, Edwards RA, Raffatellu M. Microcin
 
===Source===
 
===Source===
  

Latest revision as of 00:32, 28 October 2020


P11 driven mcbABCD; PtetR driven mcbEFG; luxPR driven tetR


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Illegal XbaI site found at 5306
    Illegal PstI site found at 2327
    Illegal PstI site found at 2360
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NheI site found at 5263
    Illegal PstI site found at 2327
    Illegal PstI site found at 2360
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    INCOMPATIBLE WITH RFC[23]
    Illegal XbaI site found at 5306
    Illegal PstI site found at 2327
    Illegal PstI site found at 2360
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal XbaI site found at 5306
    Illegal PstI site found at 2327
    Illegal PstI site found at 2360
    Illegal NgoMIV site found at 1989
    Illegal AgeI site found at 2161
  • 1000
    COMPATIBLE WITH RFC[1000]


Design Notes

The promoter luxpR is activated by a complex of which the formation requires both enough expression of luxI and luxR. When the population of our bacteria is low,the amount of the complex is not enough, thus the luxpR promoter cannot initiate expression of downstream genes. When the population of bacteria reaches a certain level, the AHL-luxR triggers the luxpR promoter, so that our engineered probiotics will express and secrete CaAP and play a role in facilitating calcium absorption. See more information about luxI-luxR-luxpR regulating system on BBa_K3606100. tetR regulate ptetR with tetracycline altogether.

Methods:

In order to prove that McbABCDEFG does have an effective antibacterial effect as well as McbEFG can protect the engineered bacteria themselves and help the secretion of antimicrobial peptides more effectively, we designed the following experiment:

We mixed WT E.coli (expressing GFP driven by plac) and E.coli with mcbABCD-mcbEFG-ptetR in different ratios (5:7 20:7 50:7), and measured the OD value of the bacteria two hours after adding an inducer, which can be used to reflect the antibacterial effect of antimicrobial peptides. We followed the same method as above to mix WT E. coli and E.coli with merely mcbABCD, induce and measure the OD value.

T--Fudan--img flowchart1.png
T--Fudan--flowchart kanamp.png

Results:

We constructed the plasmid and successfully expressed the system.

Figure1. MEFL/particle for different Px and PxAD when the ratio of mixure(WT:Px=5:7)
Figure2. MEFL/particle for different Px and PxAD when the ratio of mixure(WT:Px=20:7)
Figure3. MEFL/particle for different Px and PxAD when the ratio of mixure(WT:Px=50:7)

We could see an overall decrease of GFP expression in nearly all groups cocultured with P1 or P2AD than the control group which only contains WT, indicating that the antimicrobial peptide(MccB17) encoded by mcbABCD does have a negative effect on over microbial. In this case, the living status of WT cells and its function in creating GFP is strongly restricted by the toxic environment, proving that our part mcbABCD has worked successfully.

While inside each paired group, there clearly are a better inhibition effect in P1 group than P1AD group, as the MEFL/particle is much lower in the P1 group than the P1AD group when driven by certain promoters. This shows that the immunity function of mcbEFG is working successfully, as the E.coli expressing mcbEFG can help the engineered strain to survive with efflux exporting the toxic peptide, as well as better killing off other strains to gain survival advantage.

It is worth noting that when the mixing ratio of WT E. coli and McbABCDEFG-expressing bacteria is 50:7, the OD values of each group are very close to those of the control group (only induced WT E. coli). This shows that when the concentration of the engineered bacteria is very low, the antimicrobial peptides are difficult to exert antibacterial effect and the engineered bacteria have no competitive advantage.

Figure4. Calculated Bacteria Counts (a.u.) Calculated Bacteria Counts when the ratio of mixure(Px/PxAD:WT=1:1)

We could see the population increase are not significant in total over time, yet WT grows rather fast at first in the P2AD group, indicating its lack of immunity part mcbEFG can lead to the death of engineered E.coli. more, thus shows less restrain on the WT cells. Yet, as mccb17 accumulates, a clear decrease can be observed when time extends in both P2 and P2AD, proving our antimicrobial peptide expressing system are working to help the engineered E.coli. gain better survival advantage.


Further Application:

For futher application, this part expresses antimicrobial peptide(mccb17) as well as providing immunity to create survival advantage for the engineered strain. These part are especially useful to be expressed in vivo because research has proved that it can also ease the inflammation in intestine by limiting the expansion of related pathogens and pathobionts.

References:

[1] Collin F, Maxwell A. The Microbial Toxin Microcin B17: Prospects for the Development of New Antibacterial Agents. J Mol Biol. 2019;431(18):3400–3426. doi:10.1016/j.jmb.2019.05.050

[2] S. Duquesne, D. Destoumieux-Garzón, J. Peduzzi, S. Rebuffat. Microcins, gene-encoded antibacterial peptides from enterobacteria

[3] Sassone-Corsi M, Nuccio SP, Liu H, Hernandez D, Vu CT, Takahashi AA, Edwards RA, Raffatellu M. Microcin

Source

tba

References