Difference between revisions of "Part:BBa K1632012:Experience"

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<partinfo>BBa_K1632012 short</partinfo>
 
<partinfo>BBa_K1632012 short</partinfo>
 
__TOC__
 
__TOC__
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===Materials and Methods===
 
===Materials and Methods===
 +
 
<b>1.Construction</b><br>
 
<b>1.Construction</b><br>
 +
 
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>
  
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A. PBAD/araC_fimB(6A1) +''fim'' switch[default ON]_rbs_gfp(3K3) <br>
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A. PBAD/araC_fimB (pSB6A1) +''fim'' switch[default ON]_rbs_gfp (pSB3K3) <br>
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B. PBAD/araC_fimB(6A1) +''fim'' switch[default OFF]_rbs_gfp(3K3) <br>
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B. PBAD/araC_fimB (pSB6A1) +''fim'' switch[default OFF]_rbs_gfp (pSB3K3) <br>
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C. rbs_M256IcysE(6A1) + ''fim'' switch[default ON]_rbs_gfp(3K3) …positive control 1<br>
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C. pSB6A1 + ''fim'' switch[default ON]_rbs_gfp (pSB3K3) …positive control 1<br>
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D. rbs_M256IcysE(6A1) + ''fim'' switch[default OFF]_rbs_gfp(3K3) …negative control 1<br>
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D. pSB6A1 + ''fim'' switch[default OFF]_rbs_gfp (pSB3K3) …negative control 1<br>
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E. PBAD/araC_fimB(6A1) + J23119_rbs_gfp(3K3) …positive control 2 <br>
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E. PBAD/araC_fimB (pSB6A1) + J23119_rbs_gfp (pSB3K3) …positive control 2 <br>
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F. PBAD/araC_fimB(6A1)+rbs_gfp(3K3) …negative control 2 <br>
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F. PBAD/araC_fimB (pSB6A1)+rbs_gfp (pSB3K3) …negative control 2 <br>
  
 
[[Image:Tokyo_Tech_FimB_assay.png |thumb|center|600px|<b>Fig. 1. </b>Plasmids]]<br>
 
[[Image:Tokyo_Tech_FimB_assay.png |thumb|center|600px|<b>Fig. 1. </b>Plasmids]]<br>
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<b>2. Assay protocol</b><br>
 
<b>2. Assay protocol</b><br>
 +
 
1. Prepare overnight cultures for the each sample in 3 mL of LB medium containing ampicillin (50 microg / mL), kanamycin (30 microg / mL)　and glucose (final concentration of mass of glucose is 0.5 percent) at 37 ℃ for 12h.<br>
 
1. Prepare overnight cultures for the each sample in 3 mL of LB medium containing ampicillin (50 microg / mL), kanamycin (30 microg / mL)　and glucose (final concentration of mass of glucose is 0.5 percent) at 37 ℃ for 12h.<br>
 
2. Make a 1:100 dilution in 3 mL of fresh LB containing Amp, Kan and glucose (final concentration of mass of glucose is 0.5 percent).<br>
 
2. Make a 1:100 dilution in 3 mL of fresh LB containing Amp, Kan and glucose (final concentration of mass of glucose is 0.5 percent).<br>

Revision as of 05:45, 17 September 2015

PBAD/araC_rbs_fimB(wild-type)

Materials and Methods

1.Construction

All the samples were DH5α strain with antibiotic resistance to ampicillin and kanamycin.

A. PBAD/araC_fimB (pSB6A1) +fim switch[default ON]_rbs_gfp (pSB3K3)
B. PBAD/araC_fimB (pSB6A1) +fim switch[default OFF]_rbs_gfp (pSB3K3)
C. pSB6A1 + fim switch[default ON]_rbs_gfp (pSB3K3) …positive control 1
D. pSB6A1 + fim switch[default OFF]_rbs_gfp (pSB3K3) …negative control 1
E. PBAD/araC_fimB (pSB6A1) + J23119_rbs_gfp (pSB3K3) …positive control 2
F. PBAD/araC_fimB (pSB6A1)+rbs_gfp (pSB3K3) …negative control 2

Fig. 1. Plasmids

2. Assay protocol

1. Prepare overnight cultures for the each sample in 3 mL of LB medium containing ampicillin (50 microg / mL), kanamycin (30 microg / mL)　and glucose (final concentration of mass of glucose is 0.5 percent) at 37 ℃ for 12h.
2. Make a 1:100 dilution in 3 mL of fresh LB containing Amp, Kan and glucose (final concentration of mass of glucose is 0.5 percent).
3.Grow the cells at 37 ℃ until the observed OD590 reaches 0.4 (Fresh Culture)
4. After incubation, take 1 mL of the samples, and centrifuge at 5000x g, 1 min, 25 ℃
5. Remove the supernatant by using P1000 pipette
6. Suspend the pellet in 1 mL of LB containing Amp and Kan, and centrifuge at 5000x g, 1 min, 25 ℃
7. Remove the supernatant by using P1000 pipette
8. Suspend the pellet in 1 mL of LB containing Amp and Kan, and centrifuge at 5000x g, 1 min, 25 ℃
9. Remove the supernatant by using P1000 pipette
10. Add 1 mL of LB containing Amp and Kan, and suspend.
11. Add 30 microL of suspension in the following medium.
① 3 mL of LB containing Amp, Kan, glucose (final concentration of mass of glucose is 0.5 percent) and 30 microL of sterile water
② 3 mL of LB containing Amp, Kan and 30 microL of 2 mM arabinose (final concentration of arabinose is 20 microM)
③ 3 mL of LB containing Amp, Kan and 30 microL of 20 mM arabinose (final concentration of arabinose is 200 microM)
④ 3 mL of LB containing Amp, Kan and 30 microL of 500 mM arabinose (final concentration of arabinose is 5 mM)
12. Grow the samples at 37 ℃ for 6.5 hours.
13. Measure OD590 of all the samples every hour.
14. Start preparing the flow cytometer 1 h before the end of incubation.
15. After the incubation, take the samples, and centrifuge at 9000x g, 1min, 4℃.
16. Remove the supernatant by using P1000 pipette
17. Add 1 mL of filtered PBS (phosphate-buffered saline) and suspend. (The ideal of OD is 0.3)
18. Dispense all of each suspension into a disposable tube through a cell strainer.
19. Use flow cytometer to measure the fluorescence of GFP. (We used BD FACSCaliburTM Flow Cytometer of Becton, Dickenson and Company.)