Team:XMU-China/Project Application RBSpromoter

CHARACTERIZATION PROMOTER AND RBS BY CHEMOTAXIS

The limitation of fluorescence measurement

Traditionally, the activity of promoters and efficiency of RBS are characterized with fluorescence intensity, of which the measurement quite rely on apparatus. And the precision and accuracy are determined by apparatus too. Without relative equipment, some iGEM teams can’t do researches such as Interlab study. What’s more, if we need to measure fluorescence intensity in continuous time, it calls for continuous sampling resulting in accumulated error.

Chemotaxis can do more

As we have already proved that the expression strength of cheZ is positively related with motile ability, we develop a new system to characterize the activity of different promoters and efficiency of RBS by chemotaxis. We adopt variable-controlling approach to compare chemotactic diameter shown as the size of the colony between standard parts and unknown parts by measuring the diameter of colony. The only apparatus we need is a ruler.

In order to verify the reliability of the new system. We construct three devices with different promoters which have been characterized by published papers ^{[1] [2]} (Figure 1). Three variable promoters are pLac (BBa_R0010), pBAD (BBa_K206000), pTet (BBa_R0040).

Promoter activity characterization

We stab all three colonies with different promoters on the same semi-solid culture medium with 0.02% L-arabione and 50 μg/ml chloramphenicol added in (Figure 2A). After 36 hours culturing, difference of chemotactic diameters between each colonies could be distinguished as Figure 2B.

Actually, we kept measuring chemotactic diameters of three colonies at different time and set the diameter of the colony with promoter Lac as 1.0. We got the following figure (Figure 3). The ratio between each colony diameters was fixed after 36 hours. If we set the fixed ratio as relative promoter activities, from our characterization, promoter TetR (BBa_R0040) activity is 1.86 relative to promoter Lac (BBa_R0010). Refer to published papers ^{[1] [2]}, promoter activity between pTetR and pLac has already been measured, and their ratio (pTetR/pLac) is 1.58. So our system is reliable as it could tell the difference between different promoter activities. However, no published data tell us about the relative promoter activity of pBAD (BBa_K206000), while L-arabinose can induce pBAD (BBa_K206000). The characterization of the relative activity of pBAD is carried out with 0.02% inducer L-arabinose in culture. And the ratio (pBAD/pLac) is 0.37.

Extensive application

As the results shown above, we draw a conclusion that this new system works well with little errors. We can also standardize this method to characterize most of the promoters. What’s more, it can be used to characterize the RBS efficiency (Figure 4A), terminator efficiency (Figure 4B) and expression strength of target gene etc (Figure 4C).

Click the following biobricks to read more about our results:

BBa_K1412614

BBa_K1412014

BBa_K1412000

Want to see more applications: Black Hole, Aptamer Key-Lock, Oscillation timer.

Reference

1. Kelly J R, Rubin A J, Davis J H, et al. Measuring the activity of BioBrick promoters using an in vivo reference standard [J]. Journal of biological engineering, 2009, 3(1): 4.

2. http://parts.igem.org/Part:BBa_R0010:Experience