Team:KIT-Kyoto/Notebook-week4

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{{KIT-Kyoto}}
 
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     <ul class="navi">
     <ul class="navi">
         <li>
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             <div class="category"><img src="http://2012.igem.org/wiki/images/1/1f/Side_labnotekit.jpg" width="150" height="30"></div>
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             <div class="category"><img src="http://2012.igem.org/wiki/images/d/db/Side_partskit.jpg" width="150" height="30"></div>
 +
            <ul class="menu">
 +
                <li><a href="http://2012.igem.org/Team:KIT-Kyoto/Notebook-week1p"><img src="http://2012.igem.org/wiki/images/1/1b/Side_week1kit.jpg" width="150" height="30"></a></li>
 +
                <li><a href="http://2012.igem.org/Team:KIT-Kyoto/Notebook-week2p"><img src="http://2012.igem.org/wiki/images/9/94/Side_week2kit.jpg" width="150" height="30"></a></li>
 +
                <li><a href="http://2012.igem.org/Team:KIT-Kyoto/Notebook-week3p"><img src="http://2012.igem.org/wiki/images/e/e0/Side_week3kit.jpg" width="150" height="30"></a></li>
 +
                <li><a href="http://2012.igem.org/Team:KIT-Kyoto/Notebook-week4p"><img src="http://2012.igem.org/wiki/images/3/31/Side_week4kit.jpg" width="150" height="30"></a></li>
 +
                <li><a href="http://2012.igem.org/Team:KIT-Kyoto/Notebook-week5p"><img src="http://2012.igem.org/wiki/images/e/e7/Side_week5kit.jpg" width="150" height="30"></a></li>
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            </ul>
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            <div class="category"><img src="http://2012.igem.org/wiki/images/e/eb/Side_tnfaip3kit.jpg" width="150" height="30"></div>
             <ul class="menu">
             <ul class="menu">
                 <li><a href="http://2012.igem.org/Team:KIT-Kyoto/Notebook-week1"><img src="http://2012.igem.org/wiki/images/1/1b/Side_week1kit.jpg" width="150" height="30"></a></li>
                 <li><a href="http://2012.igem.org/Team:KIT-Kyoto/Notebook-week1"><img src="http://2012.igem.org/wiki/images/1/1b/Side_week1kit.jpg" width="150" height="30"></a></li>
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<h2>August 27th</h2>
<h2>August 27th</h2>
<br>
<br>
 +
The female-virgin flies (w; Δ2,3) and male flies (yw) were collected for microinjection. The collected flies were kept in the 25℃ incubator separately.
The female-virgin flies (w; Δ2,3) and male flies (yw) were collected for microinjection. The collected flies were kept in the 25℃ incubator separately.
<br>
<br>
In total 50 pairs were collected.
In total 50 pairs were collected.
<br><br>
<br><br>
-
<strong>TNFA and API2</strong>
+
Large scale purification of the pUAS-flag-TNFAIP3 (pTFW-TNFAIP3) for microinjection into Drosophila embryos.  
-
<br><br>
+
<br>
-
<strong>Parts</strong>
+
To purify pUAS-flag-TNFAIP3 DNA, E. coli carrying the plasmid was cultured in 100 mL of LB ampicillin(+) nedium at 37℃ for 16 hours.
-
<br><br>
+
-
<Table Border Cellspacing="0">
+
-
<Tr><Td> pEGFP-C2(cut) </Td><Td> 1uL </Td></Tr>
+
-
<tr><td> Ligation high </td><td> 2.5uL </td></tr><tr>
+
-
<td> dH<sub>2</sub>O </td><td> 5uL </td></tr><tr>
+
-
<td> Total <td> 7.5uL </td></tr>
+
-
</Table>
+
-
<br><BR>
+
-
<img src="http://2012.igem.org/wiki/images/e/e6/0826bkit.png" width="500" height="300">
+
-
<br><br>
+
-
<img src="http://2012.igem.org/wiki/images/9/99/0826ckit.png" width="500" height="300">
+
<br><br>
<br><br>
 +
<h2>August 28th</h2>
<h2>August 28th</h2>
<br>
<br>
-
<strong>TNFA and API2</strong>
+
1.Sequencing of pUAS-flag-TNFAIP3 (pTFW-TNFAIP3) and pTGW-TNFAIP3 DNA
 +
<br>
 +
    To determine nucleotide sequence of pUAS-flag-TNFAIP3 (pTFW-TNFAIP3) and pTGW-TNFAIP3 DNA, we send the DNAs to the company. The sequencing data confirmed that pUAS-flag-TNFAIP3 is properly constructed.
<br><br>
<br><br>
-
<strong>Parts</strong>
+
2. Midi-prep purification of the pUAS-flag-TNFAIP3 DNA
-
<br><br>
+
-
<h2>August 29th</h2>
+
<br>
<br>
-
<strong>Parts</strong>
+
The pUAS-flag-TNFAIP3 DNA was purified from E. coli cultured on on August 22 according to protocol using Pure LinkTM HiPure Plasmid Midiprep. Concentration of the obtained DNA  was measured and adjusted it to be 1mg/mL
<br><br>
<br><br>
-
<Table Border Cellspacing="0">
 
-
<Tr><Td> pEGFP-C2-1, -2, -3, -4 </Td><Td> 1uL </Td></Tr>
 
-
<tr><td> 10×H buffer(TOYOBO) </td><td> 0.5uL </td></tr><tr>
 
-
<tr><td> XhoⅠ </td><td> 0.1uL </td></tr><tr>
 
-
<tr><td> PstⅠ </td><td> 0.1uL </td></tr><tr>
 
-
<td> dH<sub>2</sub>O </td><td> 3.3uL </td></tr><tr>
 
-
<td> Total <td> 5uL </td></tr>
 
-
</Table>
 
-
<br><BR>
 
-
<img src="http://2012.igem.org/wiki/images/9/97/0828kit.png" width="500" height="300">
 
-
<br><br>
 
-
<Table Border Cellspacing="0">
 
-
<Tr><Td></Td><Td> All samples </Td></Tr>
 
-
<Tr><Td> DNA template </Td><Td> 0.5uL </Td></Tr>
 
-
<tr><td> 10× KOD plus buffer </td><td> 10uL </td></tr>
 
-
<Tr><Td> 2mM dNTPs </Td><Td> 10uL </Td></Tr>
 
-
<Tr><Td> 25mM MgSO4 </Td><Td> 3.2uL </Td></Tr>
 
-
<td> 10P 5’ primer </td><td> 3uL </td></tr>
 
-
<Tr><td> 10P 3’ primer </td><td> 3uL </td></tr>
 
-
<Tr><td> KOD plus </td><td> 2uL </td></tr>
 
-
<Tr><td> dH<sub>2</sub>O </td><td> 68.3uL </td></tr>
 
-
<Tr><td> Total </td><td> 100uL </td></tr>
 
-
</Table>
 
-
<br><BR>
 
-
<Table Border Cellspacing="0">
+
 
-
<Tr><Td> Temperature </Td><Td> Time </Td><Td> Cycle </Td></Tr>
+
-
<tr><td> 95℃ </td><td> 2min </td><Td></Td></tr>
+
-
<Tr><Td> 95℃ </Td><Td> 15sec </Td><Td> 25 cycle </Td></Tr>
+
-
<tr><td> 58℃ </td><td> 30sec </td><Td> 25 cycle </Td></tr><tr>
+
-
<td> 68℃ </td><td> 30sec(UAS) or 1min(EGFP) </td><Td> 25 cycle </Td></tr>
+
-
<tr><td> 68℃ </td><td> 30sec(UAS) or 1min(EGFP) </td><Td></Td></tr>
+
-
<tr><td> 14℃ </td><td> ∞ </td><Td></Td></tr>
+
-
</Table>
+
-
<br><BR>
+
-
<img src="http://2012.igem.org/wiki/images/d/d2/0829b.png" width="500" height="300">
+
-
<br><br>
+
<h2>August 30th</h2>
<h2>August 30th</h2>
 +
<br>
 +
Micro-injection of the pUAS-flag-TNFAIP3 DNA into Drosophila embryos
<br>
<br>
<strong>Microinjection</strong>
<strong>Microinjection</strong>
<br>
<br>
-
1. In the morning, w; Δ2,3 (female-virgin) were crossed with yw (male) in the cage and kept for 3 to 4 hours at 25℃.
+
1. In the morning, w; Δ2,3 (female-virgin) were crossed with yw (male) in the cage and kept for 3 to 4 hours at 25℃.
<br>
<br>
-
2. NaCl/Triton X-100, 10% Na-hypochloride, H<sub>2</sub>O were kept on ice.
+
2. NaCl/Triton X-100, 10% Na-hypochloride, H<sub>2</sub>O were kept on ice.
<br>
<br>
3. The tape was placed on the cover glass (3M tape, Cot No. W-18 pastes on the center).
3. The tape was placed on the cover glass (3M tape, Cot No. W-18 pastes on the center).
Line 182: Line 151:
6. glass needles for microinjection were prepared.
6. glass needles for microinjection were prepared.
<br>
<br>
-
7. The early embryos were collected on the nylon mesh and washed 3-4 times with NaCl/Triton X-100. Then embryos were dechorinated with 5 % Na-hypochloride. Then the dechorionated embryos were washed 7-8 times with H<sub>2</sub>O.
+
7. The early embryos were collected on the nylon mesh and washed 3-4 times with NaCl/Triton X-100. Then     embryos were dechorinated with 5 % Na-hypochloride. Then the dechorionated embryos were washed 7-8 times  with H<sub>2</sub>O.
<br>
<br>
-
8. The dechorinated embryos were placed on the prepared cover glass then parafin oil was dropped onto the embryos.
+
8. The dechorinated embryos were placed on the prepared cover glass then parafin oil was dropped onto the    embryos.
<br>
<br>
-
9. DNA (pUAS-TNFAIP3) was microinjected into embryos.
+
9. DNA (pUAS-flag-TNFAIP3) was microinjected into embryos.
<br>
<br>
-
10. After microinjection, the injected embryos were removed with the tape on the cover glass and placed onto the new egg plate. The tapes keep upside down from avoiding dry the embryos.  
+
10. After microinjection, the injected embryos were removed with the tape on the cover glass and placed onto the   new egg plate. The tapes keep upside down from avoiding dry the embryos.  
<br>
<br>
11. The plate was kept in the 25℃ incubator.
11. The plate was kept in the 25℃ incubator.
<br>
<br>
-
In total 692 embryos were microinjected with pUAS-TNFAIP3 DNA (1mg/ml in microinjection buffer).
+
 In total 692 embryos were microinjected with pUAS-flag-TNFAIP3 DNA (1mg/ml in microinjection buffer).
<br>
<br>
-
Microinjection buffer: 5 mM KCl, 0.1 mM Sodium Phosphate, pH6.8
+
 Microinjection buffer: 5 mM KCl, 0.1 mM Sodium Phosphate, pH6.8
<br>
<br>
-
DNA was EtOH-precipitated, washed with 75% EtOH and dissolved to 1 mg/ml in the Microinjection buffer.
+
 DNA was EtOH-precipitated, washed with 75% EtOH and dissolved to 1 mg/ml in the Microinjection buffer.
<br>
<br>
<br>
<br>
<img src="http://2012.igem.org/wiki/images/d/d2/Injectionしてるとこ.JPG" width="500" height="300">
<img src="http://2012.igem.org/wiki/images/d/d2/Injectionしてるとこ.JPG" width="500" height="300">
<br><br>
<br><br>
 +
 +
<h2>August 31st</h2>
<h2>August 31st</h2>
<br>
<br>
 +
The hatched larvae were picked up and transferred to the new fly food vials and kept in the 25℃ incubator.
The hatched larvae were picked up and transferred to the new fly food vials and kept in the 25℃ incubator.
<br><br>
<br><br>
-
 
-
<strong>Parts</strong>
 
-
<br><br>
 
-
<Table Border Cellspacing="0">
 
-
<Tr><Td></Td><Td> All samples </Td></Tr>
 
-
<Tr><Td> DNA template </Td><Td> 0.5uL </Td></Tr>
 
-
<tr><td> 10× KOD plus buffer </td><td> 10uL </td></tr>
 
-
<Tr><Td> 2mM dNTPs </Td><Td> 10uL </Td></Tr>
 
-
<Tr><Td> 25mM MgSO4 </Td><Td> 3.2uL </Td></Tr>
 
-
<td> 10P 5’ primer </td><td> 3uL </td></tr>
 
-
<Tr><td> 10P 3’ primer </td><td> 3uL </td></tr>
 
-
<Tr><td> KOD plus </td><td> 2uL </td></tr>
 
-
<Tr><td> dH<sub>2</sub>O </td><td> 68.3uL </td></tr>
 
-
<Tr><td> Total </td><td> 100uL </td></tr>
 
-
</Table>
 
-
<br><BR>
 
-
 
-
<Table Border Cellspacing="0">
 
-
<Tr><Td> Temperature</Td><Td> Time </Td><Td>Cycle</Td></Tr>
 
-
<tr><td>  95℃ </td><td> 2min </td><Td></Td></tr>
 
-
<Tr><Td>  95℃ </Td><Td> 15sec </Td><Td> 25 cycle </Td></Tr>
 
-
<tr><td>  58℃ </td><td> 30sec </td><Td> 25 cycle </Td></tr><tr>
 
-
<td>  68℃ </td><td> 30sec </td><Td> 25 cycle </Td></tr>
 
-
<tr><td>  68℃ </td><td> 30sec </td><Td></Td></tr>
 
-
<tr><td>  14℃ </td><td> ∞ </td><Td></Td></tr>
 
-
</Table>
 
-
<br><BR>
 
<h2>September 1st</h2>
<h2>September 1st</h2>
<br>
<br>
-
<strong>TNFA and API2</strong>
 
-
<br><br>
 
The hatched larvae were picked up and transferred to the new fly food vials and kept in the 25℃ incubator. About 20 larvae were put into a fly food vial.
The hatched larvae were picked up and transferred to the new fly food vials and kept in the 25℃ incubator. About 20 larvae were put into a fly food vial.
<br><br>
<br><br>
-
<strong>Parts</strong>
+
 
-
<br><br>
+
 
-
<img src="http://2012.igem.org/wiki/images/b/b0/0901akit.png" width="500" height="300">
+
 
-
<br><br>
+
-
<Table Border Cellspacing="0">
+
-
<Tr><Td></Td><Td> All samples </Td></Tr>
+
-
<tr><td> DNA template </td><td> 0.3uL </td></tr>
+
-
<Tr><Td> 10× KOD plus buffer </Td><Td> 10uL </Td></Tr>
+
-
<tr><td> 2mM dNTPs </td><td> 10uL </td></tr><tr>
+
-
<td> 25mM MgSO4 </td><td> 3.2uL </td></tr>
+
-
<td> 10P 5’ primer </td><td> 3uL </td></tr>
+
-
<td> 10P 3’ primer </td><td> 3uL </td></tr>
+
-
<td> KOD plus </td><td> 2uL </td></tr>
+
-
<td> dH<sub>2</sub>O </td><td> 68.5uL </td></tr>
+
-
<td> Total <td> 100uL </td></tr>
+
-
</Table>
+
-
<br><BR>
+
-
<Table Border Cellspacing="0">
+
-
<Tr><Td> Temperature </Td><Td> Time </Td><Td> Circle </Td></Tr>
+
-
<tr><td>  95℃ </td><td> 2min </td><Td></Td></tr>
+
-
<Tr><Td>  95℃ </Td><Td> 15sec </Td><Td> 25 cycle </Td></Tr>
+
-
<tr><td>  59℃ </td><td> 30sec </td><Td> 25 cycle </Td></tr><tr>
+
-
<td>  68℃ </td><td> 1min30sec(Act5c and LacZ) or 2min(GAL4 and U-T) </td><Td> 25 cycle </Td></tr><tr>
+
-
<td>  68℃ </td><td> 1min30sec(Act5c and LacZ) or 2min(GAL4 and U-T) </td><Td></Td></tr><tr>
+
-
<td>  14℃ </td><td> ∞ </td><Td></Td></tr>
+
-
</Table>
+
-
<br><br>
+
-
<img src="http://2012.igem.org/wiki/images/6/67/0901bkit.png" width="500" height="300">
+
-
<br><br>
+
<h2>September 2nd</h2>
<h2>September 2nd</h2>
-
<br><strong>TNFA and API2</strong>
+
<br>
-
<br><br>
+
The hatched larvae were picked up and transferred to the new fly food vials and kept in the 25℃ incubator. In total 144 larvae were collected. The hatching efficiency after microinjection was calculated to be 20.8%.
The hatched larvae were picked up and transferred to the new fly food vials and kept in the 25℃ incubator. In total 144 larvae were collected. The hatching efficiency after microinjection was calculated to be 20.8%.
<br><br>
<br><br>
Line 281: Line 197:
-
<h2>September 3rd</h2>
 
-
<BR>
 
-
<strong>TNFA and API2</strong>
 
-
<br><br>
 
-
 
+
<div align="right"><a href="http://2012.igem.org/Team:KIT-Kyoto/Notebook-week5">>>>>>>>>>WEEK5</a></div>
-
<strong>Parts</strong>
+
-
<br><br>
+
-
<Table Border Cellspacing="0">
+
-
<Tr><Td></Td><Td> All samples </Td></Tr>
+
-
<tr><td> DNA template </td><td> 0.2uL </td></tr>
+
-
<Tr><Td> 10× KOD plus buffer </Td><Td> 5uL </Td></Tr>
+
-
<tr><td> 2mM dNTPs </td><td> 5uL </td></tr><tr>
+
-
<td> 25mM MgSO4 </td><td> 1.6uL </td></tr><tr>
+
-
<td> 10P 5’ primer </td><td> 1.5uL </td></tr><tr>
+
-
<td> 10P 3’ primer </td><td> 1.5uL </td></tr><tr>
+
-
<td> KOD plus </td><td> 1u L</td></tr><tr>
+
-
<td> dH<sub>2</sub>O </td><td> 34.2uL </td></tr><tr>
+
-
<td> Total <td> 50uL </td></tr>
+
-
</Table>
+
-
<br><BR>
+
-
<Table Border Cellspacing="0">
+
-
<Tr><Td> Temperature </Td><Td> Time </Td><Td> Circle </Td></Tr>
+
-
<tr><td> 95℃ </td><td> 2min </td><Td></Td></tr>
+
-
<Tr><Td> 95℃ </Td><Td> 15sec </Td><Td> 25 cycle </Td></Tr>
+
-
<tr><td> 55℃(GAL4) and 58℃(Except for GAL4) </td><td> 30sec </td><Td> 25 cycle </Td></tr><tr>
+
-
<td> 68℃ </td><td> 2min30sec </td><Td> 25 cycle </Td></tr>
+
-
<td> 68℃ </td><td> 2min30sec </td><Td></Td></tr>
+
-
<td> 14℃ </td><td> ∞ </td><Td></Td></tr>
+
-
</Table>
+
-
<br><br>
+
-
<img src="http://2012.igem.org/wiki/images/c/ca/0903kit.png" width="500" height="300">
+
-
<br><br>
+
</div>
</div>
</div>
</div>

Latest revision as of 04:14, 26 September 2012






August 27th


The female-virgin flies (w; Δ2,3) and male flies (yw) were collected for microinjection. The collected flies were kept in the 25℃ incubator separately.
In total 50 pairs were collected.

Large scale purification of the pUAS-flag-TNFAIP3 (pTFW-TNFAIP3) for microinjection into Drosophila embryos.
To purify pUAS-flag-TNFAIP3 DNA, E. coli carrying the plasmid was cultured in 100 mL of LB ampicillin(+) nedium at 37℃ for 16 hours.

August 28th


1.Sequencing of pUAS-flag-TNFAIP3 (pTFW-TNFAIP3) and pTGW-TNFAIP3 DNA
To determine nucleotide sequence of pUAS-flag-TNFAIP3 (pTFW-TNFAIP3) and pTGW-TNFAIP3 DNA, we send the DNAs to the company. The sequencing data confirmed that pUAS-flag-TNFAIP3 is properly constructed.

2. Midi-prep purification of the pUAS-flag-TNFAIP3 DNA
The pUAS-flag-TNFAIP3 DNA was purified from E. coli cultured on on August 22 according to protocol using Pure LinkTM HiPure Plasmid Midiprep. Concentration of the obtained DNA was measured and adjusted it to be 1mg/mL

August 30th


Micro-injection of the pUAS-flag-TNFAIP3 DNA into Drosophila embryos
Microinjection
1. In the morning, w; Δ2,3 (female-virgin) were crossed with yw (male) in the cage and kept for 3 to 4 hours at 25℃.
2. NaCl/Triton X-100, 10% Na-hypochloride, H2O were kept on ice.
3. The tape was placed on the cover glass (3M tape, Cot No. W-18 pastes on the center).
4. parafin oil is prepared.
5. 1mg/ml DNA in microinjection buffere is prepared.
6. glass needles for microinjection were prepared.
7. The early embryos were collected on the nylon mesh and washed 3-4 times with NaCl/Triton X-100. Then     embryos were dechorinated with 5 % Na-hypochloride. Then the dechorionated embryos were washed 7-8 times  with H2O.
8. The dechorinated embryos were placed on the prepared cover glass then parafin oil was dropped onto the    embryos.
9. DNA (pUAS-flag-TNFAIP3) was microinjected into embryos.
10. After microinjection, the injected embryos were removed with the tape on the cover glass and placed onto the   new egg plate. The tapes keep upside down from avoiding dry the embryos.
11. The plate was kept in the 25℃ incubator.
 In total 692 embryos were microinjected with pUAS-flag-TNFAIP3 DNA (1mg/ml in microinjection buffer).
 Microinjection buffer: 5 mM KCl, 0.1 mM Sodium Phosphate, pH6.8
 DNA was EtOH-precipitated, washed with 75% EtOH and dissolved to 1 mg/ml in the Microinjection buffer.



August 31st


The hatched larvae were picked up and transferred to the new fly food vials and kept in the 25℃ incubator.

September 1st


The hatched larvae were picked up and transferred to the new fly food vials and kept in the 25℃ incubator. About 20 larvae were put into a fly food vial.

September 2nd


The hatched larvae were picked up and transferred to the new fly food vials and kept in the 25℃ incubator. In total 144 larvae were collected. The hatching efficiency after microinjection was calculated to be 20.8%.