Team:UT-Tokyo/Project/Results
From 2011.igem.org
Project
iGEM UT-Tokyo
Results
- This page is composed of the results of our experiments.
- The experiments are to evaluate the possibility and potential of our idea and can be divided into two sections: chemoattraction and production of L-Asp, and motility regulation by CheZ. Each page of the two sections includes the goal and methodological outline of experiments carried out as well as the results.
- In addition, we deviced “dual luciferase assay kit” in order to establish better measurement of gene expression. This kit is designed so that luciferase assay can easily be conducted for iGEM-standardized promoters. Explanation and analysis of this kit is given here.
- Details of methods and experimental conditions for each experiment are provided in Method page
Section 1: Substrate-induced Cell Assembling
1.Summary
- Bacteria including Escherichia coli has a property known as chemotaxis. They are believed to be attracted toward certain substances, including L-aspartate (L-Asp). We have tryed to make an E. coli attracting other bacteria toward itself by a substrate-stimulated L-Asp production. Also, we characterized the chemoattraction of E.coli toward L-Asp, and compared the results to a computational simulation. We obtained supportive evidences for the agreement of the wet and the dry. Therefore, we propose that, if we get an E. coli secreting enough level of L-Asp, we can devise an inducible cell mustering system.
1.1.The production of L-Asp
- In the past studies aiming at L-Asp over-production, the amount of L-Asp was determined by HPLC [1,2]. However, having no available HPLC-apparaturs, we were unable to use this method, so we tried to detect it in alternative ways.
- We first tried to make an E. coli producing L-Asp using lac promoter BBa_R0011. WT transformed with BBa_K518004 (lacP-RBS-AspA-d.Ter) was pre-cultured with 1mM IPTG. The culture was soaked in the fumaric acid solution containing annmonia. Note that AspA synthesize L-Asp from fumaric acid and ammonia. The reaction mix was incubated at 37 degreed celcius for 1 hour. After the incubation, the concentration of L-Asp was measured through ninhydrin staining and ultraviolet-visible spectroscopy. Unfortunatelly, we could not gain obvious data. We had ninhydrin react with L-Asp produced by AspA. Ninhydrin probably reacted not only with L-Asp but also with remaining ammonia.
- The second attempt was TLC. Two microlitters of the supernatant of the incubated reaction solution was spotted onto a TLC sillica plate, and extracted with 70% ethanol. We had expected L-Asp and ammonia to be separated. However, it was impracible to separate them using ethanol. We then tried various concentrations of acetone as a developing solvent, only to observe smearing lanes.
- One of the main reasons of the failure is that our methods relied on ninhydrin reaction. Ninhydrin certaionly reacts with L-Asp. However, ninhydrin also reacts with an indispensable substance to AspA reaction. We should have selected a way that only one of reactants and products can be detected definitely. Now then, the sequencing result shows that Assembling BBa_K518004 was success. So, it may be possible to make sure of the work if a right method is selected. For example, L-Asp is detected by HTLC and AspA protain is detected instead of L-Asp.
1.2.The characterization of L-Asp chemotaxis
- Next, to show that E.coli moves in the direction of higher L-Asp concentration, we carried out swarming assays. WT colony was innoculated into 0.25% agar LB plate and L-Asp solution was instilled. Plates were left at room temperture. After further 20 hours, those plates were captured. The representative photograph of a swarming colony is shown in Fig. 1A.
- To determine the movement of colonies toward the location of L-Asp instillation, we then performed an image analsis. Obtained images were undergone a computational processing to find an edge of the colonies. The processd image is shown in Fig. 1B.
- In this assay, we defined a colony movement as a vector from the center of a colony to the intial tip position. The colony movements were presented in Fig. 1C. The migration length of colonies was measured about 38(±9) mm with L-Asp solution, while 13(±6) mm without L-Asp. The results clearly show that colonies exposed to the L-Asp solution swarmed significantly, compared to colonies of the control group. Data is obtained from more than 6 experiment.
Section 2
TBD
Section 3
TBD