Difference between revisions of "Team:Humboldt Berlin/Description"

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Revision as of 07:31, 6 September 2019

notebook

Description

How & why

process sakaiensis

Our Inspiration

In 2016 a bacterium, Ideonella sakaiensis, was found that is able to use polyethylene terephthalate (PET) as a primary carbon and energy source (Yoshida et al., 2016). This bacterium secrets two different hydrolases into the exterior to execute the first two PET degradation steps (Yoshida et al., 2016). The first hydrolase, PETase, mainly breaks down PET to mono(2-hydroxyethyl) terephtalic acid (MHET). The second hydrolase, the MHETase, then digests MHET to terephthalic acid (TPA) and ethylene glycole (EG). The bacterium itself grows optimally within a pH range of 7-7,5 and a temperature of 30-37°C (Tanasupawat, Takehana, Yoshida, Hiraga, & Oda, 2016). It was also demonstrated that it cannot grow anaerobically and has a GC-rich genome (70,4%) (Tanasupawat et al., 2016; Yoshida et al., 2016). Later in 2018, the PETase was characterized and engineered to improve its performance (Austin et al., 2018).

Chlamy who?

chlamydomonas schaubild
Chlamydomonas

TODO Text

chlamy sun co2 conversion
e-coli illustration
Fast growth
Inclusion bodies
lack of eucaryotic posttranslational modification
eucaryotic cells illustration
Post-translational modification
Low protein yields (yeast, cell lines)
Expensive cultivation
Handling problems
chlamy illustration
Post-translational modification
rapid growth rates
Inexpensive & easy cultivation
Easy transgene insertion
plastic bottle illustration

We know that we are not after something completely new. But we want to do this right. So we chose a different organism and tried to tackle obstacles other teams failed to solve.

The iGEM projects that inspired us

Degrading microplastic is not a new idea when it comes to iGEM projects. Similarly inspired by the works of Yoshida and his colleagues (Yoshida et al., 2016) a multitude of different teams have worked on comparable topics. We know that we are not after something completely new. But we wanted to do this right. So we chose a different organism and tried to tackle obstacles other teams failed to solve. Our work was inspired by TJUSLS project on PETase 2016 (1), we are intrigued by the effort Harvard BioDesign 2016 put into their project “Plastikback” (2) and the project of ASIJ Tokyo in 2016 struck the same nerve (3). The approaches by the Teams of Tianjin 2016 (4) and ITB 2017 (5) have gravely encouraged our project as well.

microplastic icon
chlamy organism

Chlamydomonas as a model organism

We propose that by combining a photosynthesis active organism with at least the optimized PETase and the MHETase we can create a new way of recycling PET or even degrade PET completely to CO2 and H2O. The organism is then able to use the CO2 coming from the plastic as carbon source. We immediately thought of Chlamydomonas reinhardtii as an organism as it grows fast under energy-efficient conditions.

easy to cultivate & phototrophic

one organism = single cell

well established as model organism

chlamy

Learn more...

Austin, H. P., Allen, M. D., Donohoe, B. S., Rorrer, N. A., Kearns, F. L., Silveira, R. L., . . . Beckham, G. T. (2018). Characterization and engineering of a plastic-degrading aromatic polyesterase. Proceedings of the National Academy of Sciences, 115(19), E4350. Retrieved from http://www.pnas.org/content/115/19/E4350.abstract. doi:10.1073/pnas.1718804115

Crozet, P., Navarro, F. J., Willmund, F., Mehrshahi, P., Bakowski, K., Lauersen, K. J., . . . Lemaire, S. D. (2018). Birth of a Photosynthetic Chassis: A MoClo Toolkit Enabling Synthetic Biology in the Microalga Chlamydomonas reinhardtii. ACS Synthetic Biology, 7(9), 2074-2086. Retrieved from https://doi.org/10.1021/acssynbio.8b00251. doi:10.1021/acssynbio.8b00251

Engler, C., Kandzia, R., & Marillonnet, S. (2008). A one pot, one step, precision cloning method with high throughput capability. PLOS ONE, 3(11), e3647. doi:10.1371/journal.pone.0003647

Patron, N. J., Orzaez, D., Marillonnet, S., Warzecha, H., Matthewman, C., Youles, M., . . . Haseloff, J. (2015). Standards for plant synthetic biology: a common syntax for exchange of DNA parts. New Phytologist, 208(1), 13-19. Retrieved from https://nph.onlinelibrary.wiley.com/doi/abs/10.1111/nph.13532. doi:10.1111/nph.13532

Purton, S., Szaub, J., Wannathong, T., Young, R., & Economou, C. (2013). Genetic engineering of algal chloroplasts: progress and prospects. Russian Journal of Plant Physiology, 60(4), 491-499.

Tanasupawat, S., Takehana, T., Yoshida, S., Hiraga, K., & Oda, K. (2016). Ideonella sakaiensis sp. nov., isolated from a microbial consortium that degrades poly(ethylene terephthalate). Int J Syst Evol Microbiol, 66(8), 2813-2818. doi:10.1099/ijsem.0.001058

Weber, E., Engler, C., Gruetzner, R., Werner, S., & Marillonnet, S. (2011). A Modular Cloning System for Standardized Assembly of Multigene Constructs. PLOS ONE, 6(2), e16765. Retrieved from https://doi.org/10.1371/journal.pone.0016765. doi:10.1371/journal.pone.0016765

Yoshida, S., Hiraga, K., Takehana, T., Taniguchi, I., Yamaji, H., Maeda, Y., . . . Oda, K. (2016). A bacterium that degrades and assimilates poly(ethylene terephthalate). Science, 351(6278), 1196-1199. doi:10.1126/science.aad6359


Weblinks:
1 https://2016.igem.org/Team:TJUSLS_China/Description
2 https://2016.igem.org/Team:Harvard_BioDesign
3 https://2016.igem.org/Team:ASIJ_Tokyo/Results
4 https://2016.igem.org/Team:Tianjin/Description
5 https://2017.igem.org/Team:ITB_Indonesia/Description