Team:OUC-China/Description

Team OUC-China: Main

Overview

When we started

The genome contains commands which help the cell to realize some basic functions like eat, reproduce, communicate, move and excrete. Cells also can be programmed by exogenous DNA which have new commands that guide the cell to perform new artificial tasks and aims in parallel. As we all know, synthetic biology developed very fast in recent years. One of the most important things that helps us to build our fantastic dream in synthetic biology is to develop small modular genetic parts. By doing, the whole circuit will become more flexible and easy to operate. Genetic engineering is entering a new era, where microorganisms can be programmed by using synthetic constructs. More and more toolbox of modular genetic parts is designed to interface with the control of cellular processes. As we all know, the well-designed modular parts need to be assembled into biological circuits or pathways easily and different parts usually have different functions. The part created to regulate downstream gene expression is common and useful.

The existing strategies

To meet different needs, scientists have already created a lot of genetic parts based on three levels, DNA, RNA and protein. Among those three levels, post- transcriptional regulation plays a main role of gene expression. Post-translational regulation refers to the control of the levels of active protein. There are several forms. It is performed either by means of reversible events (post-translational modifications, such as phosphorylation or sequestration) or by means of irreversible events (proteolysis). To solve some current problems, more and more methods have been created based on post-translational regulation because of flexibility and practicability. The more useful toolkits we design, the more possibilities we can have.

Some methods have been created like riboswitch. A riboswitch is a regulatory segment of a messenger RNA molecule that binds a small molecule, resulting in a change in production of the proteins encoded by the mRNA. Thus, a mRNA that contains a riboswitch is directly involved in regulating its own activity, in response to the concentrations of its effector molecule. It's not only a test system, but also a way to open or close the expression of downstream genes.

Small RNA based repressor or activator is also an example. They employed a cis-repressive RNA (crRNA) element that masks the ribosome binding site (RBS) of a reporter gene through base pairing. An ectopically expressed trans-activating RNA was then designed to compete the binding with crRNA and thus to unmask RBS and restore translation.

Some problems of current methods

But some of them may have weaknesses in design. For small RNA, if the crRNA is perfectly paired with RBS, the transactivating RNA cannot compete the binding with crRNA. This may cause the low efficiency of opening this kind of switches. As for toehold switch, it is not hard to find out that each switch needs to be individually designed. At the same time, this may cause insertion of undesirable foreign sequences.

This year, our new alternative regulatory method is the ‘MiniToe Family’, which is a new toolkit based on csy4 produced by OUC-China.

Our journey

We have done

★We successfully registered our team for iGEM at February 8th.

★We met all deliverables on the Competition Deliverables page.

★We made a detailed description on what is done by ourselves and what supported by others with precise attribution. Click here!

★We participated in the Interlab Measurement and submitted our result which was accepted by committee. Click here!

★We submitted 20 new Biobrick Parts designed by ourselves which play significant roles in our project and we send 12 new Biobrick Parts among them. Click here!

★We have many kinds of collaborations related to our project! More than twelve teams contact us and help us translate our comic book into other fourteen languages. More than fifteen teams take our comic book——《E. coli SPACESHIP》to local areas for Science education. Four team help us test the function of our parts and we also help them test their system. Four other teams and OUC-china form the basic research results transformation team. We share survey experience and form a document, providing future iGEMers a reference. A new team is formed successful with our help. Click here!

★We carefully confirmed that our work is safe and do not harm to the environment and society! Click here!

★We spread iGEM spirits and promoted the development of synthetic biology in China through popular science comic book——《E. coli SPACESHIP》! And we translate the book into several languages and spread it to many areas with the help of other iGEM teams! We also spread iGEM spirits by synthetic biology lecture, summer camp, and social media. Click here!

★We participated in synthetic biology forums —— Conference of China iGEMer Community (CCiC) as the co-organizer. Click here!

★We improved Part（BBa_K1062004）by point mutant it into several mutations and have tested them by data support. They have functional improvement and both of them are the main roles of our system! See more details in this page! Click here! The new parts we improve are BBa_K2615004, BBa_K2615005, BBa_K2615006, BBa_K2615007.

★The models play an important role on our project and influence our project deeply this year. For the first system, we built an ODE model and then the modeler helps us select mutants for second system. In miniToe polycistron, the model also be used to build a frame of whole structure. Click here!

★We successfully apply our system to regulation of gene, motA! Click here!