Team:Hong Kong HKUST/riboregulator

Figure 1. Riboregulator Overview Diagram

Background

Regulatory RNAs are RNAs that regulate biological processes on genetic and metabolic levels, and their importance has been established through the discoveries including those of RNA interference (RNAi) and long noncoding RNAs (lncRNA). The elucidation of their mechanism has enabled their reverse engineering and transformed them into versatile tools in synthetic biology. Riboregulator is a class of regulatory RNAs that control translation by a pair of cis-repressing (CR) and trans-activating (TA) RNAs, and have received attention from at least 7 teams during the early years of iGEM. For example, Farren Isaacs in 2005, iGEM 2006 UC Berkeley team and iGEM 2007 Caltech team contributed many CR and TA devices to the Registry. Though there are more than > 100 regulatory RNA BioBrick records, comprehensive characterization information is missing. This hinders the iGEM community to compare and contrast different riboregulators pairs and evaluate their performances. For example, if we want to use the CR and TA devices that Berkeley 2006 made, we would not know which one to use and whether the device would work, because documentations then were not put down in the Registry or wiki page and were therefore no longer accessible.

This may hinder the reliable use of regulatory RNAs. The main focus of this project is, therefore, to provide characterization information of regulatory RNAs so that teams and labs will be confident in using these devices. There are many regulatory RNAs, but since the time during the summer is limited, we have decided to focus on one type of regulatory RNAs which is the CR-TA riboregulator system.

CR and TA riboregulator system

Artificial cis-repressing and trans-activating riboregulator system was introduced to the iGEM community by Isaacs in 2005. The riboregulator system as a whole acts to regulate translation at the RNA level. One component of the system ,crRNA, which contains a cis-repressing sequence at the 5' of the RBS, RBS, and gene of interest.

The cis-repressing sequence can form a loop form complementary base pairs with the RBS to prevent the recognition of RBS by ribosomes. The translation crRNA is also commonly described as a "lock" because it "locks" the RBS and prevent translation. The "key" to this system is the taRNA. taRNA can interact (in trans) with the cis-repressing sequence to unlock the RBS and therefore activate translation (Figure 1.).

The benefits of this system, as described in Isaacs et al.'s paper, are leakage minimization, fast response time, tunability, independent regulation of multiple genes etc.