Coding

Part:BBa_K3419003

Designed by: Leo Song   Group: iGEM20_Cornell   (2020-10-17)
Revision as of 02:59, 18 October 2020 by Leosong00 (Talk | contribs)

Tricosanthin with Strong Promoter and TorA T

Usage and Biology

Note: All work on this part was done virtually through literature research due to COVID-19 restrictions.

Trichosanthin is a protein derived from Trichosanthes kirilowii, also known as the Chinese cucumber. It has been used in Eastern traditional medicine as an abortifacient and also functions as an antitumor agent due to its inactivation effect on eukaryotic ribosomes [1]. Trichosanthin is used in our project as an anti-cancer therapeutic protein that selectively kills tumor cells while leaving our engineered prokaryotic E. coli unaffected. We were able to confirm that E. coli would be able to produce this therapeutic based on a literature search (SOURCE #: https://onlinelibrary.wiley.com/doi/full/10.1111/j.1399-3011.1992.tb01558.x). Thus, our bacteria would perform their intended function in our genetic circuit

Mechanism

Upon release into the cell, trichosanthin exhibits RNA N-glycosidase activity and depurinates the 28S rRNA of the 60S eukaryotic ribosomal subunit. This will achieve irreversible inactivation of eukaryotic ribosome activity and inhibit tumor cell function.

Figure 1. Trichosanthin is an inhibitor of protein synthesis that acts on mammalian ribosomes. Upon release into the cell, it exhibits RNA N-glycosidase activity and depurinates the 28S rRNA of the 60S eukaryotic ribosomal subunit. This will achieve irreversible inactivation of ribosome activity and inhibit tumor cell function.

art Details

This BioBrick part consists of the trichosanthin coding gene (https://www.uniprot.org/uniprot/P09989) with stop codon TGA. It is driven by a constitutive promoter (BBa_J23100), has a ribosome binding site (BBa_J61100), and a terminator (BBa_B0015). It also includes a translocase tag (BBa_K2960001), which facilitates the export of the protein from E. coli into the tumor cell.

Modeling

In MATLAB, we modeled the output of the Tricosanthin protein using the following differential equation, and we solved it using MATLAB’s ode45 function. The equation represents the production of Tricosanthin protein. The first term represents the basal expression under the constitutive promoter (BBa_J23100), while the second represents protein degradation.

DTrich dt.png

The MATLAB scripts corresponding to the Tricosanthin modeling can be downloaded here:

File:ModelingCodeCornelliGEM2020.zip

Variable Parameter Value Source
[Trich] Concentration of Tricosanthin -- --
basT Basal transcription rate 0.387 μM/sec [3]
dC degradation rate of Tricosanthin 0.000385 sec-1 [4]

Figure 2. The E. coli are able to produce a sufficient concentration of trichosanthin to kill the cancer cells given that about one hundred bacteria will colonize in one cell according to our growth modeling. Each bacteria causes a concentration increase of 268 nM, which implicates a total of 26.8 μM of trichosanthin in the cancer cell, which is significantly higher than the IC50 of 1.57 μM. A breast cancer study in mice showed that trichosanthin administered intravenously at 0.185 μM significantly slowed cancer proliferation[2]. Since Trichotherapy applies a much higher concentration than this effective chemotherapy concentration as well as the IC50, it would likely destroy cancer cells and significantly reduce tumor size. We do not expect the high concentration to be harmful as our built-in kill switch is an added safety defense to limit bacterial spread outside of the tumor.

References:

[1] Li, M. X., Yeung, H. W., Pan, L. P., & Chan, S. I. (1991). Trichosanthin, a potent HIV-1 inhibitor, can cleave supercoiled DNA in vitro. Nucleic acids research, 19(22), 6309–6312. https://doi.org/10.1093/nar/19.22.6309

[2] Li, J., Li, H., Zhang, Z., Wang, N., & Zhang, Y. (2016). The anti-cancerous activity of recombinant trichosanthin on prostate cancer cell PC3. Biological research, 49(1), 21. https://www.childrenshospital.org/research/labs/zetter-research-laboratory/tumor-metastasis-research

[3] Yildirim, Necmettin, and Michael C Mackey. “Feedback regulation in the lactose operon: a mathematical modeling study and comparison with experimental data.” Biophysical journal vol. 84,5 (2003): 2841-51. doi:10.1016/S0006-3495(03)70013-7

[4] Rust, Aleksander et al. “The Use of Plant-Derived Ribosome Inactivating Proteins in Immunotoxin Development: Past, Present and Future Generations.” Toxins vol. 9,11 344. 27 Oct. 2017, doi:10.3390/toxins9110344

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