Difference between revisions of "Part:BBa K1632012"
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<partinfo>BBa_K1632012 short</partinfo>
 
<partinfo>BBa_K1632012 short</partinfo>
  
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<span style="margin-left: 10px;">FimB is Fim recombinase.With the expression of FimB, the <i>fim</i> switch (example (<partinfo>BBa_K1632000</partinfo>), (<partinfo>BBa_K1632004</partinfo>) etc...) inverts from the ON state to the OFF state and from the OFF state to the ON state.<br>
 
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<span style="margin-left: 10px;">The expression of Fim recombinase is controlled by arabinose in BBa_K1632012.
 
  
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For more information, see [http://2015.igem.org/Team:Tokyo_Tech/Project our work in Tokyo_Tech 2015 wiki].
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[[Image:Tokyo_Tech_fimB_summary1.png |thumb|center|900px|<b>Fig. 1. </b>New plasmids we constructed to confirm the function of BBa_K1632012 plasmid for Decision making coli.]]<br>
  
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<span style="margin-left: 10px;">The <i>fim</i> switch is inverted by FimB.The FimB protein inverts the <i>fim</i> switch in the ON-to-OFF direction.<br>
  
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<span style="margin-left: 10px;">In order to assay the function of our FimB, we added a GFP coding sequence on the downstream of the <i>fim</i> switch.The <i>fim</i> switch[default ON](wild-type)_gfp (BBa_K1632007) emitts fluorescence when expressed, while the <i>fim</i> switch [default OFF](wild-type)_gfp(BBa_K1632008) does not emit florescence when expressed. We also added PBAD/''araC'' on the upstream of fimB.PBAD/''araC''_fimB (BBa_K1632012) can induce the expression of FimB in the presence of arabinose. We co-transformed a <i>fim</i> switch-gfp and a PBAD/''araC''_fim recombinase in the E. coli DH5alpha strain. We measured the fluorescence intensity of the cells induced by different concentraions of arabinose.
  
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[[Image:Tokyo_Tech_FimB_assay_Results.png |thumb|center|700px|<b>Fig. 2. </b>The histogram of the samples measured by flow cytometer]]<br>
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<span style="margin-left: 10px;">From the experimental results, our fimB inverted the <i>fim</i> switch[default ON](wild-type) from ON-to-OFF and the <i>fim</i> switch[defult OFF](wild-type) from OFF-to-ON, depending on the concentration of arabinose.<br><br>
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[[Image:Tokyo_Tech_FimB_assay_Results_part1.png |thumb|center|400px|<b>Fig. 3. </b>Close up the histogram of (2)]]<br>
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<span style="margin-left: 10px;">When the concentration of FimB (wild-type) increased by increasing the concentration of arabinose, we confirmed that the fluorescence intensity decreased in both ON to OFF process and OFF to ON process.  <br>
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<span style="margin-left: 10px;">The result of the reporter cell (2) shows that when the concentration of arabinose is increased to 0〜20 microM, the fluorescence intensity increases. This shows the function of FimB (wild-type) inverting the <i>fim</i> switch (wild-type) from OFF to ON. However, when the arabinose concentration is excess amount (5mM), the fluorescence intensity decreases (Fig.3-4-4-1). According to [1], this is caused by the excess increase of the inversion rate of the fim switch. When the inversion rate is too high, there is not enough time for transcription initiation. Consequently, the GFP expression decreases.<br><br><br>
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For more information, see [http://2015.igem.org/Team:Tokyo_Tech/Project our work in Tokyo_Tech 2015 wiki]. <br><br><br>
 
<!-- Add more about the biology of this part here
 
<!-- Add more about the biology of this part here
 
===Usage and Biology===
 
===Usage and Biology===

Revision as of 06:46, 18 September 2015

PBAD/araC_rbs_fimB(wild-type)


Fig. 1. New plasmids we constructed to confirm the function of BBa_K1632012 plasmid for Decision making coli.

The fim switch is inverted by FimB.The FimB protein inverts the fim switch in the ON-to-OFF direction.

In order to assay the function of our FimB, we added a GFP coding sequence on the downstream of the fim switch.The fim switch[default ON](wild-type)_gfp (BBa_K1632007) emitts fluorescence when expressed, while the fim switch [default OFF](wild-type)_gfp(BBa_K1632008) does not emit florescence when expressed. We also added PBAD/araC on the upstream of fimB.PBAD/araC_fimB (BBa_K1632012) can induce the expression of FimB in the presence of arabinose. We co-transformed a fim switch-gfp and a PBAD/araC_fim recombinase in the E. coli DH5alpha strain. We measured the fluorescence intensity of the cells induced by different concentraions of arabinose.

Fig. 2. The histogram of the samples measured by flow cytometer

From the experimental results, our fimB inverted the fim switch[default ON](wild-type) from ON-to-OFF and the fim switch[defult OFF](wild-type) from OFF-to-ON, depending on the concentration of arabinose.

Fig. 3. Close up the histogram of (2)

When the concentration of FimB (wild-type) increased by increasing the concentration of arabinose, we confirmed that the fluorescence intensity decreased in both ON to OFF process and OFF to ON process.

The result of the reporter cell (2) shows that when the concentration of arabinose is increased to 0〜20 microM, the fluorescence intensity increases. This shows the function of FimB (wild-type) inverting the fim switch (wild-type) from OFF to ON. However, when the arabinose concentration is excess amount (5mM), the fluorescence intensity decreases (Fig.3-4-4-1). According to [1], this is caused by the excess increase of the inversion rate of the fim switch. When the inversion rate is too high, there is not enough time for transcription initiation. Consequently, the GFP expression decreases.


For more information, see [http://2015.igem.org/Team:Tokyo_Tech/Project our work in Tokyo_Tech 2015 wiki].


Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NheI site found at 1205
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BamHI site found at 1144
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal AgeI site found at 979
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal SapI site found at 961