Team:HZAU-China/Experiments-Motility
Experiments-chassis integration
1.Introduction
Figure 1. Mechanism of motility(1-3)
Bacteria chemotaxis is related to a series of proteins, such as receptors including kinds of Tar, Tsr, Trp, Tap, Aer and cheR, cheB, cheW, cheA, cheZ, cheY in the cytoplasm. The chemotaxis network is formed in three steps: (1) Receptors at the membrane sense extracellular signals; (2) The chemotaxis proteins in the cytoplasm transmit signals from receptors to flagella; (3) The flagella accept signals and determine to swim or tumble.
The flagella switch is pivotal for the decision of strain on swimming or tumbling. It is regulated by cheY-p and cheY. The concentration of cheY-p is controlled by cheA and cheZ. So we use cheZ to regulate the differences of diffusion range rate on swarming plate to achieve our destination of pattern formation.
2.Materials and Methods
2.1 Strain and Plasmid Construction
Trans-5a is a commercialized chemically competent cell bought from Transgene for molecule cloning in E.coli. Strain CL1 is a CheZ deleted strain of E.coli K12 AMB1655 strain(maybe) and MG1655 is a motile wild type E.coli K12 strain. These two strains are generally shared by Dr. Chenli Liu, SIAT CSynBER. CG is constructed by transforming our fused fragment of CheZ and GFP into CL1 strain, and 01-CG, 06-CG and 17-CG are constructed by replacing the promoter of our fused protein with J23101, J23106, and J23117 respectively. CK is constructed by transforming BBa_K819010, a CheZ generator constructed by iGEM12_Peking, into CL1, and 01-CK, 06-CK and 17-CK are constructed by replacing the promoter of BBa_K819010 with J23101, J23106 and J23117 respectively.
The CheZ coding sequence of fused fragment is amplified from MG1655 (Laboratory of Synthetic Biology, HZAU), and the GFP coding sequence is from BBa_E0040.The termination codon of CheZ and the initiation codon of GFP are all deleted to construct fusion protein, and two fragment are linked with each other using a 18bp linker coding for 6 flexible amino acids.
2.2 Culture Condition
Unless otherwise stated, the Luria Broth, containing 0.5%yeast extraction(from xxxx),1%NaCL and 1% tryptone, were used during this project. A single frozen glycerol stock was used throughout this study for each bacterial strain. For each experiment, cells were transferred from corresponding frozen glycerol stock into LB containing appropriate concentration of antibody (chloramphenicol xxx for pSB1C3), and cultured at 37 centigrade and 180 rpm until the OD600 reached between 0.5 and 1.0. Then according its OD600 dilute the culture till its OD600 becomes 0.01, then culture in the regular condition for about half an hour or more till its OD600 is about 0.2~0.3.
2.3 Measurement of Swarming Ability in Semi-Solid Agar
For preparation of semisolid plate for swarming assay, add 0.5g agar into Conical flask containing 200ml LB to construct 0.25% agar semisolid plate. In a common sense, 200ml LB and 0.5g agar are added into a 500ml Conical flask then the flask is sealed to autoclave under 121 centigrade for 20min. The plates for swarming assay are prepared as follow. Using microwave oven to heat semi-solid plate for about 3 min, till it’s completely melting. Wait for about 20 min to let the broth cool down to about 60 centigrade. Pour the melting semi-solid agar into sterilized plate in super-clean bench and dry it for at least 1.5 hours. Then inoculate 3 micro liter of prepared culture on the plate. Make sure that the pipette is vertical to the surface of plate and the bacterial liquid is ball-shaped at the end of tips. After inoculation wait for 15-20min until it’s completely dry, leave it at room temperature to grow.
3.Result
3.1 Chez Protein Causes Different Motility in CL1
We constructed an overlapping extension fragment and purified it (Figure 2A). Its partial function as a reporter is certified by the observation under the fluorescence microscope (Figure 2B). As you can see, no matter the vector with a GFP reporter we constructed or the official CheZ generator (BBa_K819010) can complement the swarming ability of CL1, CheZ lacking strain of MG1655, at a certain degree. This experiment proves the function of CheZ on swarming assay on the one hand. On the other hand, the swarming ability of complementary strain can’t fully recover to the degree of wild type or the wild type introduced with our constructed vector. We suspect that it is due to the poor survival ability of the knock-out strain .By the way it will support the future work of quantifying. （Figure 3）
Figure 2. (A)Lane 1、2、3、5 are fusion cheZ-GFP fragment (including Biobrick) ,1377bp.(B)The observation of our strain under the fluorescence microscope proves the expression of certain protein.
Figure 3. CL1 means the E.coli K12 mg1655 cheZ lacking strain as the negative control. CK means CL1 strain transformed with BBa_K819010. CZ means CL1 transformed with our constructed Biobrick, BBa_K2012007. MG means motile wild type strain, the E.coli K12 MG1666 strain as a positive control. MK means MG1655 strain transformed with BBa_K819010. MZ means MG1655 transformed with our constructed Biobrick, BBa_K2012007.
3.2 Relationship between Promoter Strength and Swarming Ability
Because the swarming ability of neither CheZ mutant nor CheA mutant can reach up to the level of the wild type, and there is a balance between swimming and tumbling which controls the size of swarming rings, so, to better proof the practicality of our project, we tried to use different concentration of CheZ to investigate the best condition of swarming ability. Therefore, we constructed a series of vectors containing different strength promoter followed by the standard RBS(B0034) and CheZ. According to our result of swarming assays, we found that the state of tumbling and swimming reaches its balance point adjacent to fairly weak promoter strength. Finally we decided to choose promoter J23117 as our final promoter choice. However, we have limited time to give details about the correlation between the concentration of cheZ and the size of swarm rings. We will confirm this conclusion by constructing IPTG inducing promoter-GFP fragment in single copy plasmid in further research.
Figure 4. (A) Diameter of the colonies under different promoters at 17 hours, 36 hours and 48 hours separately. (B) The purple line means the diameters of CL1, the cheZ lacking strain, transformed with BBa_K20120xx. The green line means the diameters of CL1 transformed with BBa_K20120xx. The red line means the diameters of CL1 transformed with BBa_K20120xx. The blue line means the diameters of CL1 transformed with BBa_K20120xx. The sapphire line means the diameters of CL1 with no plasmids transformed as a negative control. (C)Different motility of CL1 transformed with cheZ under different strength of promoters. (D) Swarming ability of CL1 transformed with cheZ under different strength of promoters cultured for 17h, 36h, 48h after inoculation.
3.3 Normalization of Swarming Rate
Due to different strain and cultivate condition will influence the swarming diameter. But because of the limitation of experimental condition, like constant temperature and moisture, we need to demonstrate the swarming ability of wild type strain MG1655 under our experimental condition.
Figure 5.(A)The swam diameter at 8h,12h,28h,32h,38h,48h; (B)Visualization of data in (A).
Reference
1. S. Schulmeister, M. Ruttorf, S. Thiem, D. Kentner, D. Lebiedz, V. Sourjik, Protein exchange dynamics at chemoreceptor clusters in Escherichia coli. Proceedings of the National Academy of Sciences of the United States of America 105, 6403-6408 (2008); published online EpubApr 29 (10.1073/pnas.0710611105).
2. D. G. Ha, S. L. Kuchma, G. A. O'Toole, Plate-based assay for swimming motility in Pseudomonas aeruginosa. Methods in molecular biology 1149, 59-65 (2014)10.1007/978-1-4939-0473-0_7).
3. C. L. Liu, X. F. Fu, L. L. Liu, X. J. Ren, C. K. L. Chau, S. H. Li, L. Xiang, H. L. Zeng, G. H. Chen, L. H. Tang, P. Lenz, X. D. Cui, W. Huang, T. Hwa, J. D. Huang, Sequential Establishment of Stripe Patterns in an Expanding Cell Population. Science 334, 238-241 (2011); published online EpubOct 14 (10.1126/science.1209042).
Acknowledgement
Thanks to Dr. Chenli Liu from SIAT CSynBER enerous share, our experiment can process successfully.
