Revision as of 05:48, 30 September 2012 by Dmsilver (Talk | contribs)

Hello! iGEM Calgary's wiki functions best with Javascript enabled, especially for mobile devices. We recommend that you enable Javascript on your device for the best wiki-viewing experience. Thanks!

Catechol Degradation

****This section needs work. Why are we degrading catechol? What part did we use? What is the number?

Catechol is a toxic compound found in tailings ponds that is a by-product of polyaromatic hydrocarbon metabolism. Catechol can be degraded by the enzyme catechol 2,3-dioxygenase encoded by the xylE gene on the Tol plasmid of Pseudomonas putida (Nakai et al., 1983). The current iGEM Part repository has two BioBricks available of xylE. One contained xylE with its native ribosome-binding site (RBS), while the other part had the glucose-repressible Pcst promoter. Given that E. coli is grown in the presence of glucose, we designed a new construct to keep xylE repressed by using the TetR promoter.

UCalgary2010 R0040-XylE.png

Catechol 2,3-dioxygenase is an extradiol dioxygenase which cleaves catechol adjacent to the two hydroxyl groups. When this occurs 2-hydroxymuconic semialdehyde is produced, which is yellow in colour. This change in colour allows for visual assay to assess the activity of XlyE.

Catechol 2,3-dioxygenase (XlyE) enzyme converts catechol to 2-Hydroxymuconic semialdehyde in the presence of oxygen. Adapted from Shu et al., 1995.

The colour change assays were performed with the newly constructed part by bringing the supernatant of an overnight culture to a concentration of 0.1 M of catechol. The catechol was added to the supernatant because the reaction takes place outside of the cell. Within minutes of the addition of catechol to the supernatant, the solution turned from the pale yellow of LB to a bright yellow. This assay was completed by following the previous assay done by the 2008 Edinburgh iGEM team.



Nakai, C., Kagamiyama, H., and Nozaki, M. 1983. Complete nucleotide sequence of the metapyrocatechase gene on the TOL plasmid of Pseudomonas putida. The Journal of Biological Chemistry 258: 2923-2928.

Shu, L., Chiou, Y., Orville, A.M., Miller, M.A., Lipscomb, J.D., and Que, L. 1995. X-ray absorption spectroscopic studies of the Fe(II) active site of catechol 2,3-dioxygenase. Implications for the extradiol cleavage mechanism. Biochemistry 34: 6649-6659.