Revision as of 18:17, 11 October 2014

$~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ \newcommand{\MyColi}{{\small Mighty\hspace{0.12cm}Coli}} \newcommand{\Stabi}{\small Stabi}$ $\newcommand{\EColi}{\small E.coli} \newcommand{\SCere}{\small S.cerevisae}\\[0cm] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ \newcommand{\PI}{\small PI}$ $\newcommand{\Igo}{\Large\mathcal{I}} \newcommand{\Tgo}{\Large\mathcal{T}} \newcommand{\Ogo}{\Large\mathcal{O}} ~$ Example of a hierarchical menu in CSS

- Université Libre de Bruxelles -

Results & Conclusion

Activity of phoA+P on its N-terminal extremity

In order to test the functionality of the alcaline phosphatase (PhoA) with a proline (P) on its N-terminal extremity, we constructed different plasmids by restriction-ligation : pBAD33-phoA (wild-type phoA under a galactose-inducible promoter) and pBAD33-P-phoA (phoA with a N-terminal proline, under a galactose-inducible promoter). Plasmids were chemoporated into ΔphoA cells and streaked on LB medium containing 1 % glucose, 1 % arabinose or neither [Fig. p5]. We also added X-Phos (5-bromo-4-chloro-3-indolyl phosphate), a translucid compound that becomes blue when dephosphorylated to detect phosphatase activity.

Figure p5 : PhoA activity assay. ΔphoA cells were transformed with an empty pBAD33 vector, pBAD33-P-PhoA or pBAD33-PhoA and streaked on LB medium containing glucose (1 %) or arabinose (1 %). Phosphatase activity was detected by adding 90 µg/µl X-Phos to the medium.

The expression of the plasmid is induced by arabinose and repressed by glucose and the chromogenic media enable the bacteria whose alkaline phosphatase is active to color in blue.

We have observed that each colony has been colored in a light blue when the plasmid was under the repression of glucose (A.2) while only the bacteria which have phoA or phoA+P within their plasmid appeared in a strong blue at the arabinose media (B.2). The same result was observed at the media without arabinose nor glucose but the blue was lighter.

First, we think, following the results under glucose repression, that the production of something (that we didn’t characterize) has been induced by glucose in the bacteria because each strain shows the same degree of blue.

Secondly, at the media without arabinose or glucose, we did not observe a blue color appear in the control colony but we still observed it in the other two colonies. We think this is probably due to a small expression of the genes phoA and phoA+P.

Finally looking at the arabinose media, we observed a strong blue color in the colonies with the phoA and phoA+P genes while the control colony did not color itself in blue.

In conclusion, a proline on the N-terminal extremity of the alkaline phosphatase does not inhibit its activity.

Characterization of our biobrick ccdB

See the ULB-Brussels part (registry page).

We constructed 4 different colonies including a control colony made of E.coli without plasmid containing a ccd gene, a second one with pBAD33::ccdB, a third one containing pKK233::ccdA and the final one with both plasmids.
The ccdA gene encoded for a protein acts as a ccdB anti-toxin and so allows the bacteria which express it to survive.

The [Fig. p6] shows our results of the ccdB killing assay on two different media. To interpret them, one should know that IPTG induces the expression of pKK233, glucose represses the expression of pBAD33 and arabinose incude the expression of pBAD33.

We made dilution to assure that the cell concentration didn’t affect the toxicity or anti-toxicity. The rows indicate the plasmid with ccd genes, and the columns indicate the dilution factor from left to right: $10^{0}$, $10^{-2}$, $10^{-3}$, $10^{-4}$, $10^{-6}$.

Figure p6$:\hspace{0.16cm}$ CcdB Killing assay on the bacterial strain containing a plasmid pKK233/ccdA inductible with IPTG and/or a plasmid pBAD33/ccdB inductible with arabinose according various dilutions. Left: under glucose & IPTG condition, right: under arabinose & IPTG condition.

Conclusion & perspectives

Since our wetlab failed, all the questions we had on the actual effectiveness of Mighty Coli remain unanswered :

Would the metabolic cost of overproducing a toxin and an antitoxin cancel the beneficial effect of a homogeneous population ?
Since there will be more than one exemplar of each plasmid in a cell, some plasmids might still endure mutations without direct impact on the viability of the cell (the other plasmids would compensate the loss). Could that phenomenon have a notable impact on Mighty Coli efficacy ?
Stochastic repartitions of plasmids and metabolites during mitosis could disturb the balance between toxin and antitoxin. Could that phenomenon have a notable impact on Mighty Coli efficacy ?
Is there a P2A-like peptide sequence that would be functional in E.Coli ? The only result that we acquired relates to this question, but did not allow us to answer it. We only know that we can use phoA as a molecular marker for the positive screening of the P2A-like peptides.
And of course, the one that underlies all the other: does Mighty Coli actually works ?

The perspectives for the use of Mighty Coli are endless, but the next step in its development is basically still the first. We still learned the hard way at least two lessons that we can transmit to another team to carry on our work. The first advice is that one should not use the In Fusion kit® to make the gene construction, since the volumes and concentrations needed for such a construction to succeed are simply astronomical. The second advice is that the restriction site Sal1 in the pBAD33 used by our Lab seems unusable for restriction and homologous recombination.

< Notebook

@@ Line 29: / Line 29: @@
 In order to test the functionality of the alcaline phosphatase (PhoA) with a proline (P) on its N-terminal extremity, we constructed different plasmids by restriction-ligation : pBAD33-phoA (wild-type phoA under a galactose-inducible promoter) and pBAD33-P-phoA (phoA with a N-terminal proline, under a galactose-inducible promoter).
-Plasmids were chemoporated into ΔphoA cells and streaked on LB medium containing 1 % glucose, 1 % arabinose or neither. We also added X-Phos (5-bromo-4-chloro-3-indolyl phosphate), a translucid compound that becomes blue when dephosphorylated to detect phosphatase activity.
+Plasmids were chemoporated into ΔphoA cells and streaked on LB medium containing 1 % glucose, 1 % arabinose or neither <b>[Fig. p5]</b>. We also added X-Phos (5-bromo-4-chloro-3-indolyl phosphate), a translucid compound that becomes blue when dephosphorylated to detect phosphatase activity.
 <br>
 <center><img src="https://static.igem.org/mediawiki/2014/7/76/PhoA.png">
@@ Line 35: / Line 35: @@
 <section style="margin: -50px"></section>
 <section style="margin: 50px">
-<br><font size="1"><b>Figure 1 </b> : PhoA activity assay. ΔphoA cells were transformed with an empty pBAD33 vector, pBAD33-P-PhoA or pBAD33-PhoA and streaked on LB medium containing glucose (1 %) or arabinose (1 %). Phosphatase activity was detected by adding 90 µg/µl X-Phos to the medium.
+<br><font size="1"><b>Figure p5 </b> : PhoA activity assay. ΔphoA cells were transformed with an empty pBAD33 vector, pBAD33-P-PhoA or pBAD33-PhoA and streaked on LB medium containing glucose (1 %) or arabinose (1 %). Phosphatase activity was detected by adding 90 µg/µl X-Phos to the medium.
 </font></section>
 <br>
@@ Line 51: / Line 51: @@
 <p>See the <a href="http://parts.igem.org/Part:BBa_K1318000"> ULB-Brussels part <b>(registry page)</b></a>.</p>
-<!-- <p>We constructed 4 different colonies including a control colony made of E.coli without plasmid containing a ccd gene (line 1), a second one with pBAD33::ccdB (line2), a third one containing pKK233::ccdA (line 3) and the final one with both plasmids.<br>
+<p>We constructed 4 different colonies including a control colony made of E.coli without plasmid containing a ccd gene, a second one with pBAD33::ccdB, a third one containing pKK233::ccdA and the final one with both plasmids.<br>
-The ccdA gene encoded for a protein which acts as an anti-toxin for ccdB and so allows the bacteria which express it to survive.</p>
+The ccdA gene encoded for a protein acts as a ccdB anti-toxin and so allows the bacteria which express it to survive.</p>
-<p>The <b>[Fig.6]</b> shows our results of the ccdB killing assay on two different media. To interpret them, one should know that IPTG induces pKK233’s expression, glucose represses pBAD33’s expression and arabinose incude the expression of pBAD33.</p> We made dilution to assure that the cell concentration didn’t affect the toxicity or anti-toxicity. The columns indicate the dilution factor from left to right: $10^{0}$, $10^{-2}$, $10^{-3}$, $10^{-4}$, $10^{-6}$.
+<p>The <b>[Fig. p6]</b> shows our results of the ccdB killing assay on two different media. To interpret them, one should know that IPTG induces the expression of pKK233, glucose represses the expression of pBAD33 and arabinose incude the expression of pBAD33.</p> We made dilution to assure that the cell concentration didn’t affect the toxicity or anti-toxicity. The rows indicate the plasmid with ccd genes, and the columns indicate the dilution factor from left to right: $10^{0}$, $10^{-2}$, $10^{-3}$, $10^{-4}$, $10^{-6}$.
 </p>
-<br>-->
+<br>
 <center> <img src="https://static.igem.org/mediawiki/2014/f/fc/ULB-Brussels_ccdB-legend.png">
 </center>
 <section style="margin: -50px"></section>
 <section style="margin: 50px">
-<br><font size="1"><b>Figure 2 </b>$:\hspace{0.16cm}$
+<br><font size="1"><b>Figure p6</b>$:\hspace{0.16cm}$
 CcdB Killing assay on the bacterial strain containing a plasmid pKK233/ccdA inductible with IPTG and/or a plasmid pBAD33/ccdB inductible with arabinose according various dilutions.
 Left: under glucose & IPTG condition, right: under arabinose & IPTG condition.</font></section>

Team:ULB-Brussels/Project/Results

From 2014.igem.org

Revision as of 18:17, 11 October 2014

Activity of phoA+P on its N-terminal extremity

Characterization of our biobrick ccdB

Conclusion & perspectives