Team:Tokyo Tech/Projects/making-rain/GC-Assay

From 2011.igem.org

(Difference between revisions)
 
(13 intermediate revisions not shown)
Line 325: Line 325:
<!-- left menu list -->
<!-- left menu list -->
-
<div style="min-height: 2750px; float: left;">
+
<div style="min-height: 3250px; float: left;">
<div id="LeftMenu">
<div id="LeftMenu">
<!--list of page menu: DO NOT WRITE LINKS NOT WRITTEN IN THIS PAGE -->
<!--list of page menu: DO NOT WRITE LINKS NOT WRITTEN IN THIS PAGE -->
<ul>
<ul>
-
<li><a href="#Const">1. Construction</a></li>
+
<li><a href="#const">1. Construction</a></li>
<li><a href="#AP">2. Assay Preparation</a></li>
<li><a href="#AP">2. Assay Preparation</a></li>
<li><a href="#Em-isp">3. Assay Method by <i>E. coli</i></a></li>
<li><a href="#Em-isp">3. Assay Method by <i>E. coli</i></a></li>
 +
<li><a href="#aerosol">4. Aerosol formation</a></li>
</ul>
</ul>
</div>
</div>
Line 344: Line 345:
<h2 id="const"> 1. Construction </h2>
<h2 id="const"> 1. Construction </h2>
          
          
-
<p>]
+
<p>
We obtained the gene <span class="gene">ispS</span> (on pMK) from Gene Arts.  
We obtained the gene <span class="gene">ispS</span> (on pMK) from Gene Arts.  
</p>
</p>
Line 391: Line 392:
         <p>
         <p>
Each bacterial sample was grown in a 500 mL flask containing 100 mL LB media. Cultures were grown at 37&deg;C and then induced by 0.5 mM IPTG when OD<sub>600</sub> reached 0.6. After 4 hours of induction, 50 mL of headspace gas was taken by absorbing material (mini-PAT including Tenax: Japan Analytical Industry Co., Ltd) and injected into GC-MS.
Each bacterial sample was grown in a 500 mL flask containing 100 mL LB media. Cultures were grown at 37&deg;C and then induced by 0.5 mM IPTG when OD<sub>600</sub> reached 0.6. After 4 hours of induction, 50 mL of headspace gas was taken by absorbing material (mini-PAT including Tenax: Japan Analytical Industry Co., Ltd) and injected into GC-MS.
-
</p>
+
</p>
-
<p>
+
<p>
                 <div align="center">
                 <div align="center">
                          
                          
Line 406: Line 407:
                 </p>       
                 </p>       
-
<p>We calculated the amount of isoprene production, using the calibration data we obtained above.  
+
<p>
 +
We calculated the amount of isoprene production, using the calibration data we obtained above.
 +
</p>
 +
<div align="center">
 +
<img src="https://static.igem.org/mediawiki/2011/e/e4/Rain-fig4-2.jpg" alt="isprene-graph" width="450px" />
 +
</div>
 +
<center>
 +
Fig. 6 The amount of isoprene detected in <span class="name">E. coli</span> extract.   
 +
</center>
-
</p>
+
<h2 id="aerosol"> 4.Aerosol formation</h2>
-
<div align="center">
+
<p>
-
                       
+
To do the ozone-isoprene reaction, we used teflon bag as a container for the reaction. Firstly ozone was produce by the ozone generator as the following photo. After measured the concentration of ozone, we used big syringe, injected a certain amount of ozone into the bag. Then using small size of syringe we injected isoprene and water into the bags. We could see that isoprene evaporated immediately. Finally because ultraviolet radiation helps the reaction, we put the teflon bags into clean bench and turned the UV on.
-
                     
+
</p>
-
                        <img src="https://static.igem.org/mediawiki/2011/5/56/Rain-fig4-2.png" alt="isprene-graph" width="450px" />
+
<div align="center">
-
                </div>
+
<img src="https://static.igem.org/mediawiki/2011/8/82/Ozone.JPG" width="450px" />
-
  <center>
+
</div>
-
                Fig. 6 The amount of isoprene detected in <span class="name">E. coli</span> extract.  
+
<br/>
-
        </center>
+
<center>
-
<div align="center">
+
Fig. 7 Method of aerosol formation experiment
-
                       
+
</center>
-
                     
+
-
                        <img src="https://static.igem.org/mediawiki/2011/8/82/Ozone.JPG" width="300px" />
+
-
                </div>
+
-
  <center>
+
-
                Fig. 7 Method of aerosol formation experiment
+
-
</center>
+
-
<div align="center">
+
-
+
-
       
+
<!-- ############ End of main contents ############ -->
<!-- ############ End of main contents ############ -->

Latest revision as of 03:46, 29 October 2011

Tokyo Tech 2011

Rain details

1. Construction

We obtained the gene ispS (on pMK) from Gene Arts.

construction

Fig. 1 construction for ispS parts

It was difficult to excise ispS gene from pMK by cutting between EcoRI and PstI site, EcoRI and SpeI site, or XbaI and PstI site, because the length of pMK from which ispS was excised were as long as the length of ispS. So, we cut the pMK at NcoI site to make different length and ligated into the pSB3K3 including lacIQ promoter. Finally, we cut out PlacIQ-ispS and ligated it into pSB1C3 backbone vector.(BBa_K649303)


2. Assay Preparation

To measure the amount of isoprene produced by our E. coli, we used electron-ionization Gas Chromatography-Mass Spectrometry equipment (GC-MS, QP-2010, SHIMADZU, Japan). Analytes were separated by a nonpolar column (Rtx-1MS: Length 30 m, ID 0.25 mm film thickness 0.5 µm, USA) working in a constant flow mode (2.99 mL min-1). The temperature program was chosen as follows: 40°C for 7 min, increase to 280°C at rate of 10°C min-1, 280°C for 5 min. The mass spectrometer worked in SIM mode, m/z 67.


assay

Fig. 2 GC-MS

We made dilution series of liquid isoprene (Wako Pure Chemical Industries, Ltd, Japan) diluted in chloroform(diluted 102,103,104,105,106,107-fold). The undiluted isoprene solution 1 µL is 0.654 mg. We injected diluted isoprene into GC-MS, and draw a calibration curve (Fig. 3). If X (x=logX) represents the area of isoprene's peak and Y (y=logY) represents the amount of isoprene [mg], the calibration curve is described by the equation “Y = 10-7.9 × X0.89”.

assay

Fig. 3 calibration curve

3. Assay Method by E. coli


Fig. 4 constraction for assay

Each bacterial sample was grown in a 500 mL flask containing 100 mL LB media. Cultures were grown at 37°C and then induced by 0.5 mM IPTG when OD600 reached 0.6. After 4 hours of induction, 50 mL of headspace gas was taken by absorbing material (mini-PAT including Tenax: Japan Analytical Industry Co., Ltd) and injected into GC-MS.

isoprene_ex isoprene_ex isoprene_ex
Fig. 5 Assay Method

We calculated the amount of isoprene production, using the calibration data we obtained above.

isprene-graph
Fig. 6 The amount of isoprene detected in E. coli extract.

4.Aerosol formation

To do the ozone-isoprene reaction, we used teflon bag as a container for the reaction. Firstly ozone was produce by the ozone generator as the following photo. After measured the concentration of ozone, we used big syringe, injected a certain amount of ozone into the bag. Then using small size of syringe we injected isoprene and water into the bags. We could see that isoprene evaporated immediately. Finally because ultraviolet radiation helps the reaction, we put the teflon bags into clean bench and turned the UV on.


Fig. 7 Method of aerosol formation experiment