Team:TU Delft-Leiden/Project/Life science/EET/characterisation

From 2014.igem.org

(Difference between revisions)
Line 8: Line 8:
<h2> Extracellular Electron Transport Module - Characterisation</h2>
<h2> Extracellular Electron Transport Module - Characterisation</h2>
-
<p>Hoi</p>
+
<h3> Characterization of BBa_K1316011</h3>
 +
 
 +
<p> The CCM cluster is a cluster consisting of genes encoding for several (parts of) proteins. The cytochrome C maturation (Ccm) system consists of heme delivery proteins that help the conduit proteins, such as the proteins in the MtrCAB operon, to mature properly by translocate heme in the periplasm and catalyzes the formation of thioether bonds that link heme to two cysteine residues. The axial ligands are then coordinated to the heme iron and the holocytochrom C is folded. In these strains, no conduit proteins are inserted, but the heme delivery proteins should be more expressed. When there is an increased expression of heme delivery proteins, that can already be seen by the redness of the pellets (because of the heme) after the membrane purification. </p>
 +
 
 +
<br>
 +
 
 +
<h4> Membrane purification and UV-VIS </h4>
 +
<p> To look into the expression of the cytochrome c maturation (Ccm) proteins, an UV-VIS has been done. E. coli (C43) cultures were transformed with BBa_K1316011 and then cultivated aerobically. E. coli (C43) CcmA-H+NdeI from the Ajo-Franklin lab and E. coli (C43) without plasmid were used as a positive and negative control, respectively. BBa_K1316011 expected to have more expression of the Ccm proteins than the normal E. coli (C43) strain and more equal expressions compared with E. coli (C43) CcmA-H+NdeI because of the inserted Ccm operon. When there is an increased expression of heme delivery proteins, that can already be seen by the redness of the pellets (because of the heme) after induction with IPTG. </p>
 +
 
 +
<figure>
 +
<img src="https://static.igem.org/mediawiki/2014/0/02/IGEM_TU_Delft2014_Ccm_pellet.jpg" width="30%" height="30%">
 +
<figcaption>
 +
Figure 1: pictures of the pellets shown that there was a difference in color in BBa_K1316011 and E. coli (C43) CcmA-H+NdeI compared to E. coli (C43).
 +
</figcaption>
 +
</figure>
 +
 
 +
<br>
 +
 
 +
<p> Before membrane protein purification, BBa_K1316011 and the controls where induced with IPTG. Analysis of the pellets shown that there was a difference in color in BBa_K1316011 and E. coli (C43) CcmA-H+NdeI compared with E. coli (C43). The BBa_K1316011 and E. coli (C43) CcmA-H+NdeI had a red color, which could be indicating the increased production of cytochrome c proteins because of the heme delivery proteins. Membrane protein purifications where done by low-speed and high-speed centrifugation. </p>
 +
 
 +
<figure>
 +
<img src="https://static.igem.org/mediawiki/2014/3/39/IGEM_TU_Delft2014_UVVIS_Ccm.jpg" width="100%" height="100%">
 +
<figcaption>
 +
Figure 2: Image of a UV-VIS with membrane fractions of BBa_K1316011 (green) and E. coli (C43) CcmA-H+NdeI (positive control) (pink) and E. coli (C43) without plasmid (negative control) (blue). y-as: wavelength (nm)
 +
</figcaption>
 +
</figure>
 +
 
 +
<br>
 +
 
 +
<p> According to Reedy, C. J. & Gibney, B. R. et al (2004), there should be a peak around 550nm for cytochrome c proteins. Using the UV-VIS results, there is a peak for all membrane fractions around 550nm, so it is possible to confirm the expression of cytochrome c proteins in all the samples. There is a difference between E. coli (C43) without plasmid and BBa_K1316011, as shown in figure 1. These observations confirm that BBa_K1316011 offer enhanced cytochrome c expression compared to the E. coli (C43) strain without plasmids. </p>
 +
 
 +
<br>
 +
 
 +
<h4> SDS-PAGE </h4>
 +
 
 +
<p> A SDS-PAGE has been done with the membrane fractions for E. coli (C43), E. coli (C43) CcmA-H+NdeI and BBa_K1316011. As mentioned before, no conduit proteins, such as the proteins in the MtrCAB operon, are included in this strains. When the MtrCAB operon was included, the membrane fractions of BBa_K1316011  and the positive control should contain MtrA, a 32-kD periplasmic decaheme cytochrome c, MtrC is a 69-kD cell-surface-exposed lipid-anchored decaheme cytochrome c and MtrB is a 72-kD predicted twenty-eight strand β-barrel outer membrane protein. </p>
 +
 
 +
<figure>
 +
<img src="https://static.igem.org/mediawiki/2014/1/14/IGEM_TU_Delft2014_SDS_Ccm.jpg" width="30%" height="30%">
 +
<figcaption>
 +
Figure 3: Image of a SDS page with membrane fractions of colonies transformed with BBa_K1316011. Colonies transformed with  E. coli (C43) CcmA-H+NdeI and E. coli (C43) were used as positive and negative control, respectively. 
 +
</figcaption>
 +
</figure>
 +
 
 +
<br>
 +
 
 +
<p> There’re no significant differences between BBa_K1316011 and both positive and negative controls observed using SDS-PAGE. This is what was expected because the MtrCAB operon is not included yet in these cells. </p>
</html>
</html>
{{:Team:TU_Delft-Leiden/Templates/End}}
{{:Team:TU_Delft-Leiden/Templates/End}}

Revision as of 08:13, 12 October 2014

Extracellular Electron Transport Module - Characterisation

Characterization of BBa_K1316011

The CCM cluster is a cluster consisting of genes encoding for several (parts of) proteins. The cytochrome C maturation (Ccm) system consists of heme delivery proteins that help the conduit proteins, such as the proteins in the MtrCAB operon, to mature properly by translocate heme in the periplasm and catalyzes the formation of thioether bonds that link heme to two cysteine residues. The axial ligands are then coordinated to the heme iron and the holocytochrom C is folded. In these strains, no conduit proteins are inserted, but the heme delivery proteins should be more expressed. When there is an increased expression of heme delivery proteins, that can already be seen by the redness of the pellets (because of the heme) after the membrane purification.


Membrane purification and UV-VIS

To look into the expression of the cytochrome c maturation (Ccm) proteins, an UV-VIS has been done. E. coli (C43) cultures were transformed with BBa_K1316011 and then cultivated aerobically. E. coli (C43) CcmA-H+NdeI from the Ajo-Franklin lab and E. coli (C43) without plasmid were used as a positive and negative control, respectively. BBa_K1316011 expected to have more expression of the Ccm proteins than the normal E. coli (C43) strain and more equal expressions compared with E. coli (C43) CcmA-H+NdeI because of the inserted Ccm operon. When there is an increased expression of heme delivery proteins, that can already be seen by the redness of the pellets (because of the heme) after induction with IPTG.

Figure 1: pictures of the pellets shown that there was a difference in color in BBa_K1316011 and E. coli (C43) CcmA-H+NdeI compared to E. coli (C43).

Before membrane protein purification, BBa_K1316011 and the controls where induced with IPTG. Analysis of the pellets shown that there was a difference in color in BBa_K1316011 and E. coli (C43) CcmA-H+NdeI compared with E. coli (C43). The BBa_K1316011 and E. coli (C43) CcmA-H+NdeI had a red color, which could be indicating the increased production of cytochrome c proteins because of the heme delivery proteins. Membrane protein purifications where done by low-speed and high-speed centrifugation.

Figure 2: Image of a UV-VIS with membrane fractions of BBa_K1316011 (green) and E. coli (C43) CcmA-H+NdeI (positive control) (pink) and E. coli (C43) without plasmid (negative control) (blue). y-as: wavelength (nm)

According to Reedy, C. J. & Gibney, B. R. et al (2004), there should be a peak around 550nm for cytochrome c proteins. Using the UV-VIS results, there is a peak for all membrane fractions around 550nm, so it is possible to confirm the expression of cytochrome c proteins in all the samples. There is a difference between E. coli (C43) without plasmid and BBa_K1316011, as shown in figure 1. These observations confirm that BBa_K1316011 offer enhanced cytochrome c expression compared to the E. coli (C43) strain without plasmids.


SDS-PAGE

A SDS-PAGE has been done with the membrane fractions for E. coli (C43), E. coli (C43) CcmA-H+NdeI and BBa_K1316011. As mentioned before, no conduit proteins, such as the proteins in the MtrCAB operon, are included in this strains. When the MtrCAB operon was included, the membrane fractions of BBa_K1316011 and the positive control should contain MtrA, a 32-kD periplasmic decaheme cytochrome c, MtrC is a 69-kD cell-surface-exposed lipid-anchored decaheme cytochrome c and MtrB is a 72-kD predicted twenty-eight strand β-barrel outer membrane protein.

Figure 3: Image of a SDS page with membrane fractions of colonies transformed with BBa_K1316011. Colonies transformed with E. coli (C43) CcmA-H+NdeI and E. coli (C43) were used as positive and negative control, respectively.

There’re no significant differences between BBa_K1316011 and both positive and negative controls observed using SDS-PAGE. This is what was expected because the MtrCAB operon is not included yet in these cells.

Top
facebook twitter

Retrieved from "http://2014.igem.org/Team:TU_Delft-Leiden/Project/Life_science/EET/characterisation"