Team:Chiba/Demo experiments

From 2008.igem.org

Latest revision as of 12:44, 16 December 2008

Demonstration Experiment ~Senders~

Method

1. Pre-culture
   1. Picked and cultured the following glycerol stocks in 2mL of LB:
      1. LB-Amp, [http://partsregistry.org/Part:BBa_T9002 BBa_T9002], (JW1908)
      2. LB-Amp+0.2%Glu, [http://partsregistry.org/Part:BBa_K084012 BBa_K084012]([http://partsregistry.org/Part:BBa_J04500 plac+rbs]+[http://partsregistry.org/wiki/index.php?title=Part:BBa_C0161 LuxI(no LVA)]), (XL10G)
      3. LB-Amp+0.2%Glu, [http://partsregistry.org/Part:BBa_K084007 BBa_K084007]([http://partsregistry.org/Part:BBa_J04500 plac+rbs]+[http://partsregistry.org/wiki/index.php?title=Part:BBa_C0178 LasI(no LVA)]), (XL10G)
   2. Cultured at 37°C for 12h.
2. Culture
   1. Added 6.25% each of the pre-cultures to new LB medium.
      1. LB-Amp, [http://partsregistry.org/Part:BBa_T9002 BBa_T9002]
      2. LB-Amp+0.2%Glu, [http://partsregistry.org/Part:BBa_K084012 BBa_K084012]([http://partsregistry.org/Part:BBa_J04500 plac+rbs]+[http://partsregistry.org/wiki/index.php?title=Part:BBa_C0161 LuxI(no LVA)]), [http://partsregistry.org/Part:BBa_K084007 BBa_K084007]([http://partsregistry.org/Part:BBa_J04500 plac+rbs]+[http://partsregistry.org/wiki/index.php?title=Part:BBa_C0178 LasI(no LVA)])
   2. Cultured at 37°C for 4～5h。
3. Wash
   1. Transfer 10mL each of the culture to 50mL centrifuge tubes.
   2. Centrifuged for 6min at 3600rpm,20°C and discarded the supernatant.
   3. Added LB-Amp to each centrifuge tube:
      1. 10mL to the tube that contains [http://partsregistry.org/Part:BBa_T9002 BBa_T9002]
      2. 5mL to the tube that contains [http://partsregistry.org/Part:BBa_K084012 BBa_K084012], [http://partsregistry.org/Part:BBa_K084007 BBa_K084007]
   4. Centrifuged for 6min, 3600rpm at 20°C the tube containing [http://partsregistry.org/Part:BBa_K084012 BBa_K084012], [http://partsregistry.org/Part:BBa_K084007 BBa_K084007] and discarded　the supernatant.
   5. 10mL to the tube that contains [http://partsregistry.org/Part:BBa_K084012 BBa_K084012], [http://partsregistry.org/Part:BBa_K084007 BBa_K084007]
   6. Centrifuged for 6min, 3600rpm at 20°C the tube containing [http://partsregistry.org/Part:BBa_K084012 BBa_K084012], [http://partsregistry.org/Part:BBa_K084007 BBa_K084007] and discarded　the supernatant.
   7. 5mL to the tube that contains [http://partsregistry.org/Part:BBa_K084012 BBa_K084012], [http://partsregistry.org/Part:BBa_K084007 BBa_K084007]
4. Mix
   1. Mixed the sender cells [http://partsregistry.org/Part:BBa_K084012 BBa_K084012] and [http://partsregistry.org/Part:BBa_K084007 BBa_K084007] both with [http://partsregistry.org/Part:BBa_T9002 BBa_T9002] at a 1:1 ratio.
   2. Added 100μL each to a 96-well shallow plate (as shown in the figure).
      1. Green part is [http://partsregistry.org/Part:BBa_K084012 BBa_K084012]:[http://partsregistry.org/Part:BBa_T9002 BBa_T9002]=1:1
      2. Red part is [http://partsregistry.org/Part:BBa_K084007 BBa_K084007]:[http://partsregistry.org/Part:BBa_T9002 BBa_T9002]=1:1
      3. Uncolored part is [http://partsregistry.org/Part:BBa_T9002 BBa_T9002] alone.
5. Culture and observe results

Results

Green region: sender=LuxI, Red circular region: sender=Las I.

0 h

4 h (Lux I GFP detected)

8 h (Lux I GFP and Las I GFP detected)

LuxI GFP is detected at 4h following mixing while LasI GFP is detected after 8h, thus successfully demonstrating time-delay depending on the sender used.

--Yoshimi 13:41, 29 October 2008 (UTC)

Demonstration Experiment ~Receivers~

Varying bacterial numbers: method

1. Receiver(T9002) pre-incubation
   1. Receiver:[http://partsregistry.org/Part:BBa_T9002 BBa_T9002](JW1908)was cultured in 2mL LB-Amp. (37°C,12h)
   2. Pre-incubated Receiver([http://partsregistry.org/Part:BBa_T9002 BBa_T9002](JW1908))was plated so as to produce about 1000 colonies.
2. Sender(S03623) pre-incubation
   1. Sender:[http://partsregistry.org/Part:BBa_S03623 BBa_S03623](JW1908) was cultured in 50mL entrifuge tubes in 10mL of LB-Amp (37°C,12h)(2tubes)
3. Sender Wash
   1. Centrifuged 2 tubes containing([http://partsregistry.org/Part:BBa_T9002 BBa_T9002](JW1908))at 20°C,3600rpm for 6min and discarded supernatant.
   2. Added 10mL LB-Amp to each tube.
   3. Repeated wash twice.
4. Creating bacterial plates
   1. LB-Amp pre-cultured Sender([http://partsregistry.org/Part:BBa_S03623 BBa_S03623](JW1908)) tube 1 (10mL) was mixed with LB-Amp-agar(50°C)(10ml)to produce sender containing bacterialplate-1.
   2. LB-Amp pre-cultured Sender([http://partsregistry.org/Part:BBa_S03623 BBa_S03623](JW1908)) tube 2(100μl)was mixed with LB-Amp(9.9ml) and diluted 100-fold. 10ml of this solution was mixed with LB-Amp-agar(50°C)(10ml) and created Sender([http://partsregistry.org/Part:BBa_S03623 BBa_S03623](JW1908))containing bacterial plate-2.
   3. LB-Amp pre-cultured Sender solution-2(10μl) and LB-Amp(9.99ml)was mixed to dilute1000-fold.10ml of this solution and LB-Amp-agar(50°C)(10ml) was mixed to create Sender([http://partsregistry.org/Part:BBa_S03623 BBa_S03623](JW1908) containing bacterial plate-3
5. Lifted with nitrocellulose
   1. Receiver([http://partsregistry.org/Part:BBa_T9002 BBa_T9002](JW1908))colony was transfered to a nitrocellulose filter and placed on each of Sender([http://partsregistry.org/Part:BBa_S03623 BBa_S03623](JW1908))containing bacterial plate (1~3) and Sender-absent negative control plate (t=0). Determined the time required for the colonies to fluoresce depending on the bacterial concentration (100 and 1000-fold dilution).
6. Method to detect fluorescence
   1. Plates cultured at 37°C were exposed to UV (312nm) light once every 30 minutes to observe GFP fluorescence.

Testing different receivers-methods

1. Receiver&sender pre-culture
   1. Used Receivers were:
      1. • [http://partsregistry.org/Part:BBa_T9002 BBa_T9002]:ptet-luxR-plux-GFP(high copy)
         • ptet-luxR-(low copy),[http://partsregistry.org/Part:BBa_J37032 BBa_J37032]:plux-GFP(high copy)
         • [http://partsregistry.org/Part:BBa_T9002 BBa_T9002]:ptet-luxR-plux-GFP(low copy)
         • ptet-mLuxR(too sensitive)-plux-GFP
         • ptet-luxR-plux-GFP-plac-aiiA
         • （all JW1908）Each was cultured in 2ml LB (37°C,12h) and plated so that about 1000 colonies of receiver cells will grow.
   2. Sender:[http://partsregistry.org/Part:BBa_S03623 BBa_S03623](JW1908) was cultured in 10mL LB in 50mL centrifuge tubes (37°C,12h)
2. sender wash
   1. Each receiver-containing medium was centrifuged in 50mL tubes at de20°C, 3600rpm for 6min and supernatant discarded.
   2. Added 10mL LB to each tube.
   3. Repeated wash twice.
3. Creating bacterial plates
   1. LB pre-cultured Sender([http://partsregistry.org/Part:BBa_S03623 BBa_S03623](JW1908)) tube 1 (10mL) was mixed with LB-agar(50°C)(10ml)to produce sender containing bacterial plate-1.
   2. LB pre-cultured Sender([http://partsregistry.org/Part:BBa_S03623 BBa_S03623](JW1908)) tube 2(100μl)was mixed with LB(9.9ml) and diluted 100-fold. 10ml of this solution was mixed with LB-agar(50°C)(10ml) and created Sender([http://partsregistry.org/Part:BBa_S03623 BBa_S03623](JW1908)) containing bacterial plate-2.
   3. LB pre-cultured Sender solution-2(10μl) and LB(9.99ml) was mixed to dilute 1000-fold.10ml of this solution and LB-agar(50°C)(10ml) was mixed to create Sender([http://partsregistry.org/Part:BBa_S03623 BBa_S03623](JW1908)) containing bacterial plate-3
4. Lifted with nitrocellulose
   1. Each Receiver colony was transfered to a nitrocellulose filter and placed on a Sender([http://partsregistry.org/Part:BBa_S03623 BBa_S03623](JW1908)) containing bacterial plate (1~3) or a sender-absent negative control plate(t=0) to observe how receiver type affects the time taken for the colonies to display visible fluorescence.
5. Method to detect fluorescence
   1. Plates cultured at 37°C were exposed to UV (312nm) light once every 30 minutes to observe GFP fluorescence.

Varying bacterial numbers-results and discussion

results

No Dilution

                　0h                    　    0.5h                        1.0h

100-fold dilution

    　　　　　　　　　0h                      0.5h　 　　　　　　　　　　　　　　　　1.0h                       1.5h

1000-fold dilution

   　　            0h                 　  0.5h                1.0h　　　　　　　　　   1.5h               2.0h

discussion

We demonstrated that the GFP expression switch is delayed by the ratio of sender to receiver. The result indicates that the amount of AHL from one bacterium per time is constant and independent of bacteria number density. This is probaly because the sender has no feedback circuit of AHL production. Although this strategy can not change the time interval, we can manage the switch timing by changing the ratio of sender to receiver.

Testing different receivers-results and discussion

results

        0h                 0.5h                 1.0h                1.5h

1=N.C

2=[http://partsregistry.org/Part:BBa_T9002 BBa_T9002]:ptet-luxR-plux-GFP(high copy)

3=ptet-luxR-(low copy),[http://partsregistry.org/Part:BBa_J37032 BBa_J37032]:plux-GFP(high copy)

4=[http://partsregistry.org/Part:BBa_T9002 BBa_T9002]:ptet-luxR-plux-GFP(low copy)

5=ptet-mLuxR(too sensitive)-plux-GFP

6=N.C

7=ptet-luxR-plux-GFP-plac-aiiA

discussion

• Number 2,3 and 5 fluoresces in 30 min. We could not see time difference of these, it may be resulted from excess amount of sender bacteria.
• Precise experiments controlling the number of sender are necessary for further discussion.
• In comparizon with number 2 (T9002:high copy), there was no change of fluorescence intensity of number 4 (T9002:low copy) in 4 hours.
• It is probably because of circuit working, since the AHL is provided enough for the receiver.

Demo Experiment ~Temporal imaging system~

Method

1. Receiver(T9002)
   1. Receiver:[http://partsregistry.org/Part:BBa_T9002 BBa_T9002], T9002-p15A and AiiA Receiver (JW1908) was cultured in 2mL LB-Amp-Cm, respectively. (37°C,12h)
   2. Pre-incubated Receivers was spotted so as to produce about 300 colonies on a nitrocellulose Filtter.
   3. Incubated 37°C,12h.
2. Sender(S03623)
   1. Sender:[http://partsregistry.org/Part:BBa_S03623 BBa_S03623](JW1908) was cultured in 10mL of LB-Amp-Cm (37°C,12h) and after 12 h, added 10ml of LB Ager-Amp-Cm into the incubated Sender.
3. Lifted Receiver colony with nitrocellulose Filter to the bacterial plate.
4. Cultured at 37°C, 12h.
5. Exposed to UV (312nm) light once every 30 minutes to observe GFP fluorescence.

Result

Pic. 1 Flower should have blossomed!!!
Leaves, a stem and a flower was drawned with [http://partsregistry.org/Part:BBa_T9002 BBa_T9002], T9002-p15A, and AiiA Receiver, respectively on the plate containing [http://partsregistry.org/Part:BBa_S03623 BBa_S03623 (AHL sender)]

Discussion

GFP coloration of AiiA Receiver(flower blossom) wasn't observed.
We will try again with different method or in different condition until recognizing that the flower grow up!

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