Basic Parts
Best Basic Part: fimB (wild-type) (BBa_K1632010)
FimB (BBa_K1632010) is a Fim recombinase. This is derived from the wild type MG1655. FimB invert the fim switch in the ON-to-OFF direction and in the OFF-to-ON direction (Fig.5-2-0-1.).
From our experimental results, we confirmed that the FimB protein inverts the fim switch in the ON-to-OFF direction and in the OFF-to-ON direction with approximately equal probability and works ideally (Fig.5-2-0-2.). The expression of FimB is controlled by arabinose in PBAD/araC_fimB(BBa_K1632012).
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Fig.5-1-0-1. Design of fim switch (wild-type) |
0.Tokyo Tech 2015 iGEM Team: The Others Basic Parts
| Name | Type | Description | Design | Length(bp) | Experiment |
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| BBa_K1632000 | Regulatory | fim switch[default ON](Tokyo_Tech/J23119) | Riku Shinohara | 382 | Work |
| BBa_K1632001 | Regulatory | fim switch[default ON](Tokyo_Tech/J23119) | Riku Shinohara | 382 | Work |
| BBa_K1632004 | Regulatory | fim switch[default OFF](wild-type) | Riku Shinohara | 382 | Work |
| BBa_K1632005 | Regulatory | fim switch[default OFF](wild-type) | Riku Shinohara | 382 | Work |
| BBa_K1632006 | Regulatory | fim switch[default ON](Tokyo_Tech/R0010) | Riku Shinohara | 597 | Work |
| BBa_K1632010 | Coding | fimB(wild-type) | Riku Shinohara | 603 | Work |
| BBa_K1632011 | Coding | fimE(wild-type) | Riku Shinohara | 597 | Work |
1. fim switch (wild-type): BBa_K1632004, BBa_K1632005
We are the first team in iGEM to successfully construct both the fim switch default ON and the fim switch default OFF and experimented them. These fim switch is derived from a wild type and the gene sequence is the same as that of a wild type E.coli. The fim switch is inverted by the Fim recombinase (Fig. 5-2-1-1.). Therefore, we can regulate the expression of the gene downstream of the fim switch by adding the Fim recombinase. We constructed fim switch[default ON](wild-type)_rbs_gfp(BBa_K1632007), fim switch[default OFF](wild-type)_rbs_gfp(BBa_K1632008), Pbad/araC_fimB(wild-type) (BBa_K1632012) and PBAD/araC_fimE (wild-type) (BBa_K1632013) to characterize the function of this part, by inserting this promoter upstream of a GFP coding sequence. From the flow cytometers assay, they work ideally (Fig. 5-2-1-2. and Fig. 5-2-1-3).
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Fig.5-2-1-1. fim switch is inverted by two recombinases, FimB and FimE. These proteins have distinct activities. The FimB protein inverts fim switch in the ON-to-OFF and the OFF-to-ON direction with approximately equal probability |
2. fimE (wild-type): BBa_K1632011
fimE(wild-type)(BBa_K1632011) is Fim recombinases. This Fim recombinase is derived from the wild type MG1655. fimE invert the fim switch (wild-type) in the ON-to-OFF direction. The expression of this Fim recombinase is controlled by arabinose in BBa_K1632013. From our experimental results (Fig. 5-2-3-1.), they work ideally.
3. fim switch (Tokyo_Tech): BBa_K1632000, BBa_K1632001, BBa_K1632006
We designed fim switch with a standardized interchangeable promotor, fim switch (Tokyo_Tech). A difference between the wild type fim switch and the fim switch (Tokyo_Tech) is that we replaced the sigma 70 promoter to the J23119 promotor" (BBa_J23119). We also inserted two restriction enzyme sites in both the front (SalI and BamHI) and the back (BglII and MluI) of the promotor. By inserting the restriction enzymes, our fim switch (Tokyo_Tech) turned into a fim switch with a standardized interchangeable promotor (Fig.5-2-3-1). There is an example. BBa_K1632006 is made by removing the J23119 promotor (BBa_J23119) and inserted Plac promotor (BBa_R0010) (Fig.5-2-3-2) .
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Fig.5-2-3-1. Design of Fim Switch (Tokyo_Tech) |
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Fig.5-2-3-2. Exchange the promotor of Fim Switch (Tokyo_Tech) |
