Difference between revisions of "Part:BBa K1632011:Experience"
JunKawamura (Talk | contribs) |
|||
| Line 6: | Line 6: | ||
All the samples were DH5α strain with antibiotic resistance to ampicillin and kanamycin.<br> | All the samples were DH5α strain with antibiotic resistance to ampicillin and kanamycin.<br> | ||
| − | + | (1) PBAD/''araC''_fimE(wild-type) (pSB6A1) + ''fim'' switch[default ON](wild-type)_gfp (pSB3K3) <br> | |
| − | + | (2) PBAD/''araC''_fimE(wild-type) (pSB6A1) + ''fim'' switch[default OFF](wild-type)_gfp (pSB3K3) <br> | |
| − | + | (3) pSB6A1 + ''fim'' switch[default ON](wild-type)_gfp (pSB3K3) …positive control 1<br> | |
| − | + | (4) pSB6A1 + ''fim'' switch[default OFF](wild-type)_gfp (pSB3K3) …negative control 1<br> | |
| − | + | (5) PBAD/''araC''_fimE(wild-type) (pSB6A1) + J23119_gfp (pSB3K3) …positive control 2 <br> | |
| − | + | (6) PBAD/''araC''_fimE(wild-type) (pSB6A1) + rbs_gfp (pSB3K3) …negative control 2 <br> | |
| − | [[Image:Tokyo_Tech_FimE_assay.png|thumb|center| | + | [[Image:Tokyo_Tech_FimE_assay.png|thumb|center|900px|<b>Fig. 4. </b>Plasmids]]<br> |
=====Assay protocol===== | =====Assay protocol===== | ||
| Line 41: | Line 41: | ||
=====Results===== | =====Results===== | ||
| + | |||
| + | [[Image:Tokyo_Tech_FimE_assay_Results.png |thumb|center|700px|<b>Fig. 5. </b>Histogram of the samples measured by flow cytometer]]<br> | ||
=====Discussion===== | =====Discussion===== | ||
| + | <span style="margin-left: 10px;">We tried to confirm that <i>fim</i> switch is unidirectionally inverted in the presence of FimE (wild-type) by using GFP as a reporter, under 4 different concentrations of arabinose. In the medium with 0 M arabinose, we supplemented the medium with 1.0 % glucose in order to repress the leakage in the PBAD/araC promoter. Fig. 3-6-3-1 shows the histograms of the samples measured by the flow cytometer. In the results of the reporter cell (1), when the Induction of FimE (wild-type) expression increases, the fluorescence intensity decreases. From this fact, we confirmed that the <i>fim</i> switch (wild-type) is inverted from ON to OFF by FimE (wild-type). From the result of the reporter cell (2), even when the expression amount of FimE (wild-type) increases, the expression amount of GFP in the reporter cell (2) does not change. From this fact, we confirmed that the <i>fim</i> switch (wild-type) is inverted only from ON to OFF by FimE (wild-type). From the results of the two reporter cells (1) and (2), we successfully confirmed that FimE (wild-type) inverts the <i>fim</i> switch only from ON to OFF.<br> | ||
| + | |||
| + | <span style="margin-left: 10px;">The results of positive control 1 and negative control 1 confirmed that the endogenous FimB and FimE did not invert our fim switch (wild-type). Also, the result of positive control 2 and negative control 2, indicates that the expression of FimE (wild-type) do not have effects on the GFP expression. | ||
| + | |||
| + | ===More information=== | ||
| + | |||
| + | For more information, see [http://2015.igem.org/Team:Tokyo_Tech/Project our work in Tokyo_Tech 2015 wiki]. | ||
| − | ===Applications of | + | ===Applications of BBa_K1632011=== |
===User Reviews=== | ===User Reviews=== | ||
| − | <!-- DON'T DELETE --><partinfo> | + | <!-- DON'T DELETE --><partinfo>BBa_K1632011 StartReviews</partinfo> |
<!-- Template for a user review | <!-- Template for a user review | ||
{|width='80%' style='border:1px solid gray' | {|width='80%' style='border:1px solid gray' | ||
|- | |- | ||
|width='10%'| | |width='10%'| | ||
| − | <partinfo> | + | <partinfo>BBa_K1632011 AddReview number</partinfo> |
<I>Username</I> | <I>Username</I> | ||
|width='60%' valign='top'| | |width='60%' valign='top'| | ||
| Line 58: | Line 67: | ||
|}; | |}; | ||
<!-- End of the user review template --> | <!-- End of the user review template --> | ||
| − | <!-- DON'T DELETE --><partinfo> | + | <!-- DON'T DELETE --><partinfo>BBa_K1632011 EndReviews</partinfo> |
Revision as of 04:53, 18 September 2015
Contents
Materials and Methods
Construction
All the samples were DH5α strain with antibiotic resistance to ampicillin and kanamycin.
(1) PBAD/araC_fimE(wild-type) (pSB6A1) + fim switch[default ON](wild-type)_gfp (pSB3K3)
(2) PBAD/araC_fimE(wild-type) (pSB6A1) + fim switch[default OFF](wild-type)_gfp (pSB3K3)
(3) pSB6A1 + fim switch[default ON](wild-type)_gfp (pSB3K3) …positive control 1
(4) pSB6A1 + fim switch[default OFF](wild-type)_gfp (pSB3K3) …negative control 1
(5) PBAD/araC_fimE(wild-type) (pSB6A1) + J23119_gfp (pSB3K3) …positive control 2
(6) PBAD/araC_fimE(wild-type) (pSB6A1) + rbs_gfp (pSB3K3) …negative control 2
Assay protocol
1. Prepare overnight cultures for each sample in 3 mL of LB medium containing ampicillin (50 microg / mL), kanamycin (30 microg / mL) and glucose (final concentration is 1.0 %) at 37 ℃ for 12h.
2. Make a 1:100 dilution in 3 mL of fresh LB containing Amp, Kan and glucose (final concentration is 1.0 %).
3. Incubate the cells at 37 ℃, shaking at 180 rpm until the observed OD590 reaches 0.4 (Fresh Culture).
4. After the incubation, take 1 mL of the samples, and centrifuge at 5000x g, 1 min, 25 ℃
5. Remove the supernatant.
6. Add 1 mL of LB containing Amp and Kan, and centrifuge at 5000x g, 1 min, 25 ℃
7. Remove the supernatant.
8. Take the samples, and centrifuge at 5000x g, 1 min, 25 ℃
9. Remove the supernatant.
10. Suspend the pellet in 1mL of LB containing Amp and Kan.
11. Add 30 microL of suspension in the following medium.
① 3 mL of LB containing Amp, Kan, glucose (final concentration is 1.0 %) and 30 microL sterile water
② 3 mL of LB containing Amp, Kan and 30 microL of 500 microM arabinose (final concentration of arabinose is 5 microM)
③ 3 mL of LB containing Amp, Kan and 30 microL of 1 mM arabinose (final concentration of arabinose is 10 microM)
④ 3 mL of LB containing Amp, Kan and 30 microL of 2 mM arabinose (final concentration of arabinose is 20 microM)
※ As for C and D, the suspension were added only in medium ① and ④.
12. Incubate the samples at 37 ℃ for 6 hours, shaking at 180 rpm. (Measure the OD590 of all the samples every hour.)
13. After the incubation, take the samples, and centrifuge at 9000x g, 1min, 4℃.
14. Remove the supernatant.
15. Add 1 mL of filtered PBS (phosphate-buffered saline) and suspend. (The ideal of OD is 0.3)
16. Dispense all of each suspension into a disposable tube through a cell strainer.
17. Use flow cytometer to measure the fluorescence of GFP. (We used BD FACSCaliburTM Flow Cytometer of Becton, Dickenson and Company.)
Results
Discussion
We tried to confirm that fim switch is unidirectionally inverted in the presence of FimE (wild-type) by using GFP as a reporter, under 4 different concentrations of arabinose. In the medium with 0 M arabinose, we supplemented the medium with 1.0 % glucose in order to repress the leakage in the PBAD/araC promoter. Fig. 3-6-3-1 shows the histograms of the samples measured by the flow cytometer. In the results of the reporter cell (1), when the Induction of FimE (wild-type) expression increases, the fluorescence intensity decreases. From this fact, we confirmed that the fim switch (wild-type) is inverted from ON to OFF by FimE (wild-type). From the result of the reporter cell (2), even when the expression amount of FimE (wild-type) increases, the expression amount of GFP in the reporter cell (2) does not change. From this fact, we confirmed that the fim switch (wild-type) is inverted only from ON to OFF by FimE (wild-type). From the results of the two reporter cells (1) and (2), we successfully confirmed that FimE (wild-type) inverts the fim switch only from ON to OFF.
The results of positive control 1 and negative control 1 confirmed that the endogenous FimB and FimE did not invert our fim switch (wild-type). Also, the result of positive control 2 and negative control 2, indicates that the expression of FimE (wild-type) do not have effects on the GFP expression.
More information
For more information, see [http://2015.igem.org/Team:Tokyo_Tech/Project our work in Tokyo_Tech 2015 wiki].
Applications of BBa_K1632011
User Reviews
UNIQd6d6cd287d3d4a64-partinfo-00000000-QINU UNIQd6d6cd287d3d4a64-partinfo-00000001-QINU