Template:Kyoto/Notebook/DMS/23
From 2014.igem.org
(11 intermediate revisions not shown) | |||
Line 205: | Line 205: | ||
</tr> | </tr> | ||
</table> | </table> | ||
+ | <p>Vector and insert are evaporated</p> | ||
<h4>Transformation</h4> | <h4>Transformation</h4> | ||
Line 426: | Line 427: | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
- | <td>9/8 J23100 325µg/ml</td> | + | <td>9/8 J23100 325µg/ml control</td> |
<td>0.3</td> | <td>0.3</td> | ||
<td>-</td> | <td>-</td> | ||
Line 764: | Line 765: | ||
</tr> | </tr> | ||
</table> | </table> | ||
- | + | <img src="https://static.igem.org/mediawiki/2014/0/09/Kyoto-dms-0306_Confirmation_electrophoresis.jpg"> | |
+ | |||
</div> | </div> | ||
Line 912: | Line 914: | ||
</tr> | </tr> | ||
</table> | </table> | ||
+ | <img src="https://static.igem.org/mediawiki/2014/8/83/Kyoto-dms-0311_colonyPCR.jpg"> | ||
</div> | </div> | ||
Line 1,119: | Line 1,122: | ||
</tr> | </tr> | ||
</table> | </table> | ||
- | + | <img src="https://static.igem.org/mediawiki/2014/3/3d/Kyoto-dms-0314_Confirmation_electrophoresis_No.1%280312colonyPCR%29.jpg"> | |
+ | |||
<h4>Colony PCR</h4> | <h4>Colony PCR</h4> | ||
<span class="kyoto-author">Kojima</span> | <span class="kyoto-author">Kojima</span> | ||
Line 1,203: | Line 1,207: | ||
</tr> | </tr> | ||
</table> | </table> | ||
- | + | <img src="https://static.igem.org/mediawiki/2014/5/56/Kyoto-dms-0314_Confirmation_electrophoresisNo.2.jpg"> | |
+ | |||
<h4>Colony PCR</h4> | <h4>Colony PCR</h4> | ||
<span class="kyoto-author">Yasuda and Shimazaki</span> | <span class="kyoto-author">Yasuda and Shimazaki</span> | ||
Line 1,291: | Line 1,296: | ||
</tr> | </tr> | ||
</table> | </table> | ||
- | + | <img src="https://static.igem.org/mediawiki/2014/5/5b/Kyoto-dms-0314_Confirmation_electrophoresisNo.3.jpg"> | |
+ | |||
+ | </div> | ||
+ | |||
+ | <div> | ||
+ | |||
+ | <a name="0315" class="kyoto-jump"></a> | ||
+ | <h3>3/15</h3> | ||
+ | |||
+ | <h4>Liquid Culture</h4> | ||
+ | <span class="kyoto-author">Yasuda and Murata</span> | ||
+ | <table> | ||
+ | <tr> | ||
+ | <th>Sample</th> | ||
+ | <th>Medium</th> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td>Ruegeria pomeroyi fungus | ||
+ | |||
+ | liquid</td> | ||
+ | <td>YTSS medium</td> | ||
+ | </tr> | ||
+ | </table> | ||
+ | |||
</div> | </div> | ||
Line 1,364: | Line 1,392: | ||
</tr> | </tr> | ||
</table> | </table> | ||
+ | |||
+ | <h4>DNA Extraction</h4> | ||
+ | <span class="kyoto-author">Yasuda and Murata</span> | ||
+ | |||
+ | <p>Nuelei Lysis Solution Solution 600µL pipeting 85°C 5min incuvate and cooling</p> | ||
+ | <p>RNase Solution 3µL invert(2-5times) 37°C 45min incuvate and cooling</p> | ||
+ | <p>Protein Preciprtation Solution 200µL Highspeed voltex on ice 5min and 16000g 3min (Supernatant ladled)</p> | ||
+ | <p>isopropyl alcohol 600µL invert 16000g 2min (Supernatant discarded)</p> | ||
+ | <p>70%ethanol 600µL invert 16000g 2min aspirate 10-15min air-drying</p> | ||
+ | <p>DNA Rehydration Solution 100µL 65°C 1h incubate</p> | ||
<h4>Restriction Enzyme Digestion</h4> | <h4>Restriction Enzyme Digestion</h4> | ||
Line 1,479: | Line 1,517: | ||
</tr> | </tr> | ||
</table> | </table> | ||
- | + | <img src="https://static.igem.org/mediawiki/2014/2/28/Kyoto-dms-0319_Confirmation_electrophoresis.jpg"> | |
<h4>Restriction Enzyme Digestion</h4> | <h4>Restriction Enzyme Digestion</h4> | ||
<span class="kyoto-author">Yoshida</span> | <span class="kyoto-author">Yoshida</span> | ||
Line 1,538: | Line 1,576: | ||
</tr> | </tr> | ||
</table> | </table> | ||
- | + | <img src="https://static.igem.org/mediawiki/2014/thumb/b/be/Kyoto-Img017.jpg/605px-Kyoto-Img017.jpg"> | |
<h4>PCR</h4> | <h4>PCR</h4> | ||
<span class="kyoto-author">Kojima</span> | <span class="kyoto-author">Kojima</span> | ||
Line 1,638: | Line 1,676: | ||
</tr> | </tr> | ||
</table> | </table> | ||
- | + | <img src="https://static.igem.org/mediawiki/2014/0/03/Kyoto-dms-0320_Confirmation_electrophoresis.jpg"> | |
+ | |||
<h4>Gel Extraction</h4> | <h4>Gel Extraction</h4> | ||
<span class="kyoto-author">Yasuda and Tatsui</span> | <span class="kyoto-author">Yasuda and Tatsui</span> | ||
Line 1,667: | Line 1,706: | ||
</tr> | </tr> | ||
</table> | </table> | ||
- | + | <img src="https://static.igem.org/mediawiki/2014/9/97/Kyoto-dms-0320_Gel_Extraction.jpg"> | |
+ | |||
<h4>Gel Extraction</h4> | <h4>Gel Extraction</h4> | ||
<span class="kyoto-author">Murara</span> | <span class="kyoto-author">Murara</span> | ||
Line 1,688: | Line 1,728: | ||
</tr> | </tr> | ||
</table> | </table> | ||
+ | <img src="https://static.igem.org/mediawiki/2014/3/30/Kyoto-dms-0320_Gel_Extraction_before.jpg"> | ||
+ | <img src="https://static.igem.org/mediawiki/2014/7/7b/Kyoto-dms-0320_Gel_Extraction_after.jpg"> | ||
+ | |||
<table> | <table> | ||
<tr> | <tr> | ||
Line 1,962: | Line 2,005: | ||
</tr> | </tr> | ||
</table> | </table> | ||
- | + | <img src="https://static.igem.org/mediawiki/2014/7/79/Kyoto-dms-0325_Gel_Extraction_after.jpg"> | |
+ | |||
<table> | <table> | ||
<tr> | <tr> | ||
Line 2,014: | Line 2,058: | ||
</tr> | </tr> | ||
</table> | </table> | ||
+ | <p>Vector and insert are elaborated.</p> | ||
<h4>Transformation</h4> | <h4>Transformation</h4> | ||
Line 2,105: | Line 2,150: | ||
</tr> | </tr> | ||
</table> | </table> | ||
+ | <img src="https://static.igem.org/mediawiki/2014/2/28/Kyoto-dms-0327_Gel_Extraction_after.jpg"> | ||
+ | |||
<table> | <table> | ||
<tr> | <tr> | ||
Line 2,296: | Line 2,343: | ||
</tr> | </tr> | ||
</table> | </table> | ||
+ | <img src="https://static.igem.org/mediawiki/2014/thumb/7/7c/Kyoto-Img022.jpg/586px-Kyoto-Img022.jpg"> | ||
<h4>Transformation</h4> | <h4>Transformation</h4> | ||
Line 2,475: | Line 2,523: | ||
</tr> | </tr> | ||
</table> | </table> | ||
+ | <img src="https://static.igem.org/mediawiki/2014/thumb/9/9f/Kyoto-Img023.jpg/648px-Kyoto-Img023.jpg"> | ||
</div> | </div> |
Latest revision as of 04:55, 13 October 2014
2/10
Restriction Enzyme Digestion
Sample/(µL) | EcoR1/(µL) | Xba1/(µL) | Spe1/(µL) | Pst1/(µL) | Buffer/(µL) | BSA/(µL) | MilliQ/(µL) | Total/(µL) | ||
---|---|---|---|---|---|---|---|---|---|---|
J23100 | 5.7 | - | - | 0.5 | 0.5 | 10xBuffer(K) | 3 | - | 20.3 | 30 |
RBS-GFP-DT | 7.5 | - | 0.5 | - | 0.5 | 10xBuffer(M) | 3 | 3 | 15.5 | 30 |
Electrophoresis/Gel Extraction
Lane | Sample |
---|---|
1 | 1kbp ladder(2µL) |
2 | J23100 DNA control |
3 | J23100 S,P experimental |
4 | J23100 S,P experimental |
Lane | Sample |
---|---|
1 | 1kbp ladder(2µL) |
2 | RBS-GFP-DT DNA control |
3 | RBS-GFP-DT X,P experimental |
4 | RBS-GFP-DT X,P experimental |
Restriction Enzyme Digestion
Sample/(µL) | EcoR1/(µL) | Xba1/(µL) | Spe1/(µL) | Pst1/(µL) | Buffer/(µL) | BSA/(µL) | MilliQ/(µL) | Total/(µL) | ||
---|---|---|---|---|---|---|---|---|---|---|
J23100 | 10 | - | - | 0.5 | 0.5 | 10xBuffer(K) | 3 | - | 16 | 30 |
2/12
Electrophoresis/Gel Extraction
Lane | Sample |
---|---|
1 | 1kbp ladder(2µL) |
2 | J23100 DNA control |
3 | J23100 S,P experimental |
4 | J23100 S,P experimental |
Sample | Concentration/(µg/mL) | 260/280 | 260/230 |
---|---|---|---|
GFP | 16.7 | 1.46 | 0.64 |
Pcon | 17.2 | 1.69 | 0.26 |
Ligation
Vector/(µL) | Insert/(µL) | Buffer/(µL) | Ligase/(µL) | MilliQ/(µL) | Total/(µL) | ||||
---|---|---|---|---|---|---|---|---|---|
2/10 J23100 S,P 2100bp | 5.8 | 2/10 RBS-GFP-DT 898bp | 4.9 | 2x Buffer | 5 | T4 Ligase | 3 | - | 10 |
Vector and insert are evaporated
Transformation
Sample/(µL) | CompetentCells/(µL) | Total/(µL) | Medium | ||
---|---|---|---|---|---|
2/12 J23119(A) Pcon | 1 | Self-Making Competent Cells (DH5α) | 10 | 11 | SOC |
2/12 I712074 (Ak) T7 | 1 | Self-Making Competent Cells (DH5α) | 10 | 11 | SOC |
2/12 Ligation Pcon+RBS-GFP-PT | 1 | Self-Making Competent Cells (DH5α) | 10 | 11 | SOC |
2/13
Colony PCR
Quick Taq/(µL) | VF/(µL) | VR/(µL) | MilliQ/(µL) | Total/(µL) |
---|---|---|---|---|
30 | 1.2 | 1.2 | 27.6 | 60 |
Predenature | Denature | Annealing | Extension |
---|---|---|---|
94°C | 94°C | 55°C | 68°C |
5min | 30sec | 30sec | 72sec |
Denature-Annealing-Extension 30cycle
Number | Sample |
---|---|
1 | Pcon-RBS-GFP-DT (1) |
2 | Pcon-RBS-GFP-DT (2) |
3 | Pcon-RBS-GFP-DT (3) |
4 | Pcon-RBS-GFP-DT (4) |
5 | T7 |
Electrophoresis
Lane | Sample |
---|---|
1 | 1kbp ladder |
2 | 2/12 Pcon-RBS-GFP-DT (1) |
3 | 2/12 Pcon-RBS-GFP-DT (2) |
4 | 2/12 Pcon-RBS-GFP-DT (3) |
5 | 2/12 Pcon-RBS-GFP-DT (4) |
6 | 2/12 I712074(Ak) T7 |
Liquid Culture
Sample | Medium |
---|---|
Pcon-RBS-GFP-DT | Amp |
3/4
Restriction Enzyme Digestion
Sample/(µL) | EcoR1/(µL) | Xba1/(µL) | Spe1/(µL) | Pst1/(µL) | Buffer/(µL) | BSA/(µL) | MilliQ/(µL) | Total/(µL) | ||
---|---|---|---|---|---|---|---|---|---|---|
9/8 J23100 325µg/ml | 6 | - | - | 0.5 | 0.5 | H | 3 | 3 | 17 | 30 |
9/8 J23100 325µg/ml control | 0.3 | - | - | - | - | H | 1 | 1 | 7.7 | 10 |
9/28 RBS-GFP-DT 215.9µg/ml | 9.3 | - | 0.5 | - | 0.5 | H | 3 | 3 | 13.7 | 30 |
control | 0.5 | - | - | - | - | H | 1 | 1 | 7.5 | 10 |
Electrophoresis
Lane | Sample |
---|---|
1 | 1kbp ladder |
2 | 9/8 J23100 S,P |
3 | 9/8 J23100 control |
4 | 9/28 RBS-GFP DT X,P |
5 | 9/28 RBS-GFP DT control |
Gel Extraction
Lane | Sample |
---|---|
1 | 9/8 J23100 S,P |
2 | Blank |
3 | Blank |
4 | 9/28 RBS-GFP-DT X,P |
5 | 1kbp ladder |
3/5
Ligation
Vector/(µL) | Insert/(µL) | Buffer/(µL) | Ligase/(µL) | MilliQ/(µL) | Total/(µL) | ||||
---|---|---|---|---|---|---|---|---|---|
3/4 J23100 S,P | 4.8 | 3/4 RBS-GFP-DT X,P | 9.2 | Reaction Buffer | 2 | Ligase(Bio Lub) | 1 | 3 | 20 |
Transformation
Sample/(µL) | CompetentCells/(µL) | Total/(µL) | Medium | ||
---|---|---|---|---|---|
3/5 J23119 | 1 | Self-Making Competent Cells (DH5α) | 10 | 11 | SOC |
3/5 I712074 | 1 | Self-Making Competent Cells (DH5α) | 10 | 11 | SOC |
3/5 ligation Pcon RBS-GFP-DT | 1 | Self-Making Competent Cells (DH5α) | 10 | 11 | SOC |
3/6
Colony PCR
Quick Taq/(µL) | VF/(µL) | VR/(µL) | MilliQ/(µL) | Total/(µL) |
---|---|---|---|---|
65 | 2.6 | 2.6 | 59.8 | 130 |
Predenature | Denature | Annealing | Extension |
---|---|---|---|
94°C | 94°C | 55°C | 68°C |
5min | 30sec | 30sec | 72sec |
Denature-Annealing-Extension 30cycle
Number | Sample |
---|---|
1 | 3/5 J23119 (1) |
2 | 3/5 J23119 (2) |
3 | 3/5 J23119 (3) |
4 | 3/5 J23119 (4) |
5 | 3/5 I712074 (1) |
6 | 3/5 I712074 (2) |
7 | 3/5 I712074 (3) |
8 | 3/5 I712074 (4) |
Number | Sample |
---|---|
1 | 3/5 Pcon RBS-GFP-DT (1) |
2 | 3/5 Pcon RBS-GFP-DT (2) |
3 | 3/5 Pcon RBS-GFP-DT (3) |
4 | 3/5 Pcon RBS-GFP-DT (4) |
Electrophoresis
Lane | Sample |
---|---|
1 | 1kbp ladder |
2 | 3/5 J23119 (1) |
3 | 3/5 J23119 (2) |
4 | 3/5 J23119 (3) |
5 | 3/5 J23119 (4) |
6 | 3/5 I712074 (1) |
7 | 3/5 I712074 (2) |
8 | 3/5 I712074 (3) |
9 | 3/5 I712074 (4) |
10 | 3/5 Pcon RBS-GFP-DT (1) |
11 | 3/5 Pcon RBS-GFP-DT (2) |
12 | 3/5 Pcon RBS-GFP-DT (3) |
13 | 3/5 Pcon RBS-GFP-DT (4) |
14 | 1kbp ladder |
3/10
Transformation
Sample/(µL) | CompetentCells/(µL) | Medium |
---|---|---|
3/10 RBS-GFP | Self-Making Competent Cells (DH5α) | CP |
RBS | Self-Making Competent Cells (DH5α) | Amp |
DT | Self-Making Competent Cells (DH5α) | CP |
3/10 T7 | Self-Making Competent Cells (DH5α) | Amp |
3/11
Colony PCR
Master Mix
Quick Taq/(µL) | VF/(µL) | VR/(µL) | MilliQ/(µL) | Total/(µL) |
---|---|---|---|---|
50 | 2 | 2 | 46 | 100 |
Predenature | Denature | Annealing | Extension |
---|---|---|---|
97°C | 94°C | 55°C | 68°C |
5min | 30sec | 30sec | 60sec |
Denature-Annealing-Extension 30cycle
Number | Sample |
---|---|
1 | 3/10 RBS (1) |
2 | 3/10 RBS (2) |
3 | 3/10 pSB1C3 (1) |
4 | 3/10 pSB1C3 (2) |
5 | 3/10 DT (1) |
6 | 3/10 DT (2) |
7 | 3/10 T7 (1) |
8 | 3/10 T7 (2) |
9 | control |
3/12
Electrophoresis
Lane | Sample |
---|---|
1 | 3/10 RBS (1) |
2 | 3/10 RBS (2) |
3 | 3/10 pSB1C3 (1) |
4 | 3/10 pSB1C3 (2) |
5 | 3/10 DT (1) |
6 | 3/10 DT (2) |
7 | 3/10 T7 (1) |
8 | 3/10 T7 (2) |
9 | control |
10 | 1kbp ladder |
Colony PCR
Master Mix
Quick Taq/(µL) | VF/(µL) | VR/(µL) | MilliQ/(µL) | Total/(µL) |
---|---|---|---|---|
50 | 2.0 | 2.0 | 46 | 100 |
Predenature | Denature | Annealing | Extension |
---|---|---|---|
97°C | 94°C | 55°C | 68°C |
5min | 30sec | 30sec | 60sec |
Denature-Annealing-Extension 30cycle
Number | Sample |
---|---|
1 | 3/10 RBS 3 |
2 | 3/10 RBS 4 |
3 | 3/10 pSB1C3 4 |
4 | 3/10 pSB1C3 5 |
5 | 3/10 DT 4 |
6 | 3/10 DT 5 |
7 | 3/10 T7 3 |
8 | 3/10 T7 4 |
9 | new QuickTaq control |
10 | old QuickTaq control |
3/14
Electrophoresis
Lane | Sample |
---|---|
1 | 1kbp ladder |
2 | 3/10 RBS (1) |
3 | 3/10 RBS (2) |
4 | 3/10 pSB1C3 (3) |
5 | 3/10 pSB1C3 (4) |
6 | 3/10 DT (5) |
7 | 3/10 DT (6) |
8 | 3/10 T7 (7) |
9 | 3/10 T7 (8) |
10 | old Quick Taq control (9) |
11 | new Quick Taq control (10) |
12 | 1kbp ladder |
Colony PCR
Master Mix
Quick Taq/(µL) | VF/(µL) | VR/(µL) | MilliQ/(µL) | Total/(µL) |
---|---|---|---|---|
17.5 | 0.7 | 0.7 | 16.1 | 35 |
Predenature | Denature | Annealing | Extension |
---|---|---|---|
97°C | 95°C | 58°C | 68°C |
5min | 30sec | 30sec | 30sec |
Denature-Annealing-Extension 30cycle
Number | Sample |
---|---|
1 | RBS-4 |
2 | DT-5 |
3 | control |
Electrophoresis
Lane | Sample |
---|---|
1 | 1kbp ladder |
2 | RBS-4 |
3 | DT-5 |
4 | control |
Colony PCR
Master Mix
Quick Taq/(µL) | VF/(µL) | VR/(µL) | MilliQ/(µL) | Total/(µL) |
---|---|---|---|---|
17.5 | 0.7 | 0.7 | 16.1 | 35 |
Predenature | Denature | Annealing | Extension |
---|---|---|---|
97°C | 95°C | 58°C | 68°C |
5min | 30sec | 30sec | 60sec |
Denature-Annealing-Extension 30cycle
Number | Sample |
---|---|
1 | pSB1C3-3 |
2 | T7-5 |
3 | control |
Electrophoresis
Lane | Sample |
---|---|
1 | 1kbp ladder |
2 | pSB1C3-3 |
3 | T7-5 |
4 | control |
4 | 2/10 MilliQ |
3/18
Miniprep
Sample | Concentration/(µg/mL) | 260/280 | 260/230 |
---|---|---|---|
3/17 DT CP | 64.4 | 1.17 | 0.29 |
3/17 RBS Amp | 61.4 | 1.28 | 0.36 |
3/17 T7 Amp | 66.8 | 1.22 | 0.34 |
3/17 pSB1C3 | 64.2 | 1.31 | 0.39 |
DNA Extraction
Nuelei Lysis Solution Solution 600µL pipeting 85°C 5min incuvate and cooling
RNase Solution 3µL invert(2-5times) 37°C 45min incuvate and cooling
Protein Preciprtation Solution 200µL Highspeed voltex on ice 5min and 16000g 3min (Supernatant ladled)
isopropyl alcohol 600µL invert 16000g 2min (Supernatant discarded)
70%ethanol 600µL invert 16000g 2min aspirate 10-15min air-drying
DNA Rehydration Solution 100µL 65°C 1h incubate
Restriction Enzyme Digestion
Sample/(µL) | EcoR1/(µL) | Xba1/(µL) | Spe1/(µL) | Pst1/(µL) | Buffer/(µL) | BSA/(µL) | MilliQ/(µL) | Total/(µL) | ||
---|---|---|---|---|---|---|---|---|---|---|
pSB1C3 E,S 3/18 miniprep product | 20 | 1 | 1 | - | - | M | 3 | 3 | 2 | 30 |
control | 3 | - | - | - | - | M | 1 | 1 | 5 | 10 |
Cloning PCR
2K KAPA HiFi HotStart ReadyMix/(µL) | F dddD 66/(µL) | R dddD 65/(µL) | R.pomeroyi Genome/(µL) | MilliQ/(µL) | Total/(µL) |
---|---|---|---|---|---|
12.5 | 0.75 | 0.75 | 3 | 8 | 25 |
Predenature | Denature | Annealing | Extension | Final Extension |
---|---|---|---|---|
95°C | 98°C | 65°C | 72°C | 72°C |
3min | 20sec | 15sec | 150sec | 1sec |
Denature-Annealing-Extension 25cycle
3/19
Electrophoresis
Lane | Sample |
---|---|
1 | 1kbp ladder |
2 | pSB1C3 E,X |
3 | pSB1C3 control |
Restriction Enzyme Digestion
Sample/(µL) | EcoR1/(µL) | Xba1/(µL) | Spe1/(µL) | Pst1/(µL) | Buffer/(µL) | BSA/(µL) | MilliQ/(µL) | Total/(µL) | ||
---|---|---|---|---|---|---|---|---|---|---|
pSB1C3 3/18 miniprep product | 20 | 1 | - | 1 | - | H | 3 | - | 5 | 30 |
control | 3 | - | - | - | - | H | 1 | - | 6 | 10 |
Electrophoresis
Lane | Sample |
---|---|
1 | 1kbp ladder |
2 | dddD PCR product |
PCR
3/19 DNA Purification product/(µL) | Fw/(µL) | Rv/(µL) | HiFi Mix/(µL) | MilliQ/(µL) | Total/(µL) |
---|---|---|---|---|---|
1 | 0.75 | 0.75 | 12.5 | 10 | 25 |
R.pomeroyi Genome/(µL) | Fw/(µL) | Rv/(µL) | HiFi Mix/(µL) | MilliQ/(µL) | Total/(µL) |
---|---|---|---|---|---|
3 | 0.75 | 0.75 | 12.5 | 8 | 25 |
Predenature | Denature | Annealing | Extension | Final Extension |
---|---|---|---|---|
95°C | 98°C | 68°C | 72°C | 72°C |
5min | 20sec | 15sec | 90sec | 5min |
Denature-Annealing-Extension 25cycle
3/20
Electrophoresis
Lane | Sample |
---|---|
1 | 1kbp ladder |
2 | pSB1C3 E,S |
3 | control |
4 | dddD(1) 3/19 PCR product |
5 | dddD(2) 3/19 PCR product |
Gel Extraction
Lane | Sample |
---|---|
1 | Blank |
2 | 1kbp ladder |
3 | pSB1C3 |
4 | Blank |
5 | pSB1C3 |
Gel Extraction
Lane | Sample |
---|---|
1 | 1kbp ladder |
2 | dddD |
3 | dddD |
Sample | Concentration/(µg/mL) | 260/280 | 260/230 |
---|---|---|---|
dddD | 35 | 1.63 | 0.85 |
3/24
Restriction Enzyme Digestion
Sample/(µL) | EcoR1/(µL) | Xba1/(µL) | Spe1/(µL) | Pst1/(µL) | Buffer/(µL) | BSA/(µL) | MilliQ/(µL) | Total/(µL) | ||
---|---|---|---|---|---|---|---|---|---|---|
pSB1C3 | 11 | 0.5 | 0.5 | - | - | M | 1.5 | 1.5 | - | 15 |
dddD | 12.5 | 0.5 | - | 0.5 | - | M | 1.5 | - | - | 15 |
PCR
2x KAPA HiFi HotStart ReadyMix/(µL) | F dddD 62/(µL) | R dddD 68/(µL) | Templete 3/24 dddD/(µL) | MilliQ/(µL) | Total/(µL) |
---|---|---|---|---|---|
12.5 | 0.75 | 0.75 | pick up | 11 | 25 |
Predenature | Denature | Annealing | Extension | Final Extension |
---|---|---|---|---|
95°C | 98°C | 68°C | 72°C | 72°C |
5min | 20sec | 15sec | 90sec | 5min |
Denature-Annealing-Extension 25cycle
Number | Sample |
---|---|
1 | dddD |
Sample | Concentration/(µg/mL) | 260/280 | 260/230 |
---|---|---|---|
dddD | 62.7 | 1.77 | 1.88 |
Ligation
Vector/(µL) | Insert/(µL) | Buffer/(µL) | Ligase/(µL) | MilliQ/(µL) | Total/(µL) | ||||
---|---|---|---|---|---|---|---|---|---|
dddD | 1.3 | pSB1C3 | 0.43 | 2xBuffer | 5 | T4Ligase | 1 | 2.27 | 10 |
Liquid Culture
Sample | Medium |
---|---|
pSB1C3(3) | CP |
pSB1C3(4) | CP |
3/25
Miniprep
Sample | Concentration/(µg/mL) |
---|---|
pSB1C3 3/24 (3) | 41 |
pSB1C3 3/24 (4) | 57 |
Restriction Enzyme Digestion
Sample/(µL) | EcoR1/(µL) | Xba1/(µL) | Spe1/(µL) | Pst1/(µL) | Buffer/(µL) | BSA/(µL) | MilliQ/(µL) | Total/(µL) | ||
---|---|---|---|---|---|---|---|---|---|---|
pSB1C3 3/24 (3) | 15.4 | 0.5 | - | 0.5 | - | H | 3 | - | 10.6 | 30 |
3/24 PCR product dddD E,S | 3.2 | 0.5 | - | 0.5 | - | H | 3 | - | 22.8 | 30 |
Gel Extraction
Lane | Sample |
---|---|
1 | 1kbp ladder |
2 | pSB1C3(3) E,S 3/25 |
3 | Blank |
4 | Blank |
5 | Blank |
6 | dddD 3/25 E,S |
7 | dddD 3/25 E,S |
Sample | Concentration/(µg/mL) | 260/280 | 260/230 |
---|---|---|---|
dddD | 4.9 | 17.5 | 0.52 |
pSB1C3 | 2.0 | - | 0.21 |
3/26
Ligation
Vector/(µL) | Insert/(µL) | Buffer/(µL) | Ligase/(µL) | MilliQ/(µL) | Total/(µL) | ||||
---|---|---|---|---|---|---|---|---|---|
pSB1C3 2047bp | 30 | dddD 2545bp | 30 | 2x Rapid Ligation Buffer | 5 | T4Ligase | 3 | - | 10 |
Vector and insert are elaborated.
Transformation
Sample/(µL) |
---|
dddD(pSB1C3) |
3/27
Restriction Enzyme Digestion
Sample/(µL) | EcoR1/(µL) | Xba1/(µL) | Spe1/(µL) | Pst1/(µL) | Buffer/(µL) | BSA/(µL) | MilliQ/(µL) | Total/(µL) | ||
---|---|---|---|---|---|---|---|---|---|---|
pSB1C3(4) 3/25 | 20.1 | 0.5 | - | 0.5 | - | 10xBuffer | 3 | - | 5.9 | 30 |
dddD 3/24 PCR product | 3.2 | 0.5 | - | 0.5 | - | 10xBuffer | 3 | - | 22.8 | 30 |
Gel Extraction
Lane | Sample |
---|---|
1 | 1kbp ladder |
2 | pSB1C3 E,S 3/27 |
3 | pSB1C3 E,S 3/27 |
4 | Blank |
5 | dddD E,S 3/27 |
6 | dddD E,S 3/27 |
Sample | Concentration/(µg/mL) | 260/280 | 260/230 |
---|---|---|---|
pSB1C3 | 9 | 1.58 | 0.04 |
dddD | 16.0 | 1.78 | 0.08 |
Ligation
Vector/(µL) | Insert/(µL) | Buffer/(µL) | Ligase/(µL) | MilliQ/(µL) | Total/(µL) | ||||
---|---|---|---|---|---|---|---|---|---|
pSB1C3 | 11 | dddD | 15 | 2x Rapid Ligation Buffer | 5 | T4 DNA Ligase | 1 | 4 | 10 |
3/28
PCR
2x KAPA HiFi HotStart ReadyMix/(µL) | F Sequence primer/(µL) | R Spe1-dddD/(µL) | Templete/(µL) | MilliQ/(µL) | Total/(µL) |
---|---|---|---|---|---|
12.5 | 0.75 | 0.75 | pick up | 11 | 25 |
Predenature | Denature | Annealing | Extension | Final Extension | Cooling |
---|---|---|---|---|---|
95°C | 98°C | 68°C | 72°C | 72°C | |
5min | 20sec | 15sec | 90sec | 5min |
Denature-Annealing-Extension 25cycle
Number | Sample |
---|---|
1 | Fw:Sequence primer (1) 57.9/Rv:Spe1 dddD 2276bp |
2 | Fw:Sequence primer (2) 57.3/Rv:Spe1 dddD 1907bp |
3 | Fw:Sequence primer (3) 57.6/Rv:Spe1 dddD 1527bp |
4 | Fw:Sequence primer (4) 56.3/Rv:Spe1 dddD 1189bp |
5 | Fw:Sequence primer (5) 57.2/Rv:Spe1 dddD 799bp |
6 | Fw:Sequence primer (6) 56.4/Rv:Spe1 dddD 398bp |
7 | Fw:Sequence primer VF2 56.4/Rv:Spe1 dddD 266bp |
8 | Fw:pre-dddD PCR product 62/Rv:Spe1 dddD |
9 | Fw:Blank/Rv:Spe1 dddD |
Electrophoresis
Lane | Sample |
---|---|
1 | 1kbp ladder |
2 | Seaquence primer (1) PCR product |
3 | Seaquence primer (2) PCR product |
4 | Seaquence primer (3) PCR product |
5 | Seaquence primer (4) PCR product |
6 | Seaquence primer (5) PCR product |
7 | Seaquence primer (6) PCR product |
8 | Seaquence primer VF2 |
9 | F pre-dddD cloning |
10 | Blank |
11 | 1kbp ladder |
Transformation
Sample/(µL) | CompetentCells/(µL) | Total/(µL) | Medium | ||
---|---|---|---|---|---|
dddD | 1 | Self-Making Competent Cells (DH5α) | 10 | 11 | CP |
3/30
Colony PCR
Quick Taq/(µL) | VF/(µL) | VR/(µL) | MilliQ/(µL) | Total/(µL) |
---|---|---|---|---|
5 | 0.2 | 0.2 | 4.6 | 10 |
Predenature | Denature | Annealing | Extension |
---|---|---|---|
97°C | 95°C | 58°C | 68°C |
5min | 30sec | 30sec | 168sec |
Denature-Annealing-Extension 30cycle
Number | Sample |
---|---|
1 | 3/26 dddD(pSB1C3) (1) |
2 | 3/26 dddD(pSB1C3) (2) |
3 | 3/26 dddD(pSB1C3) (3) |
4 | 3/26 dddD(pSB1C3) (4) |
5 | 3/26 dddD(pSB1C3) (5) |
6 | 3/28 dddD(pSB1C3) (6) |
7 | 3/28 dddD(pSB1C3) (7) |
8 | 3/28 dddD(pSB1C3) (8) |
9 | 3/28 dddD(pSB1C3) (9) |
10 | 3/28 dddD(pSB1C3) (10) |
3/31
Electrophoresis
Number | Sample |
---|---|
1 | 1kbp ladder |
2 | 3/26 dddD(pSB1C3) (1) |
3 | 3/26 dddD(pSB1C3) (2) |
4 | 3/26 dddD(pSB1C3) (3) |
5 | 3/26 dddD(pSB1C3) (4) |
6 | 3/26 dddD(pSB1C3) (5) |
7 | 1kbp ladder |
8 | 3/28 dddD(pSB1C3) (6) |
9 | 3/28 dddD(pSB1C3) (7) |
10 | 3/28 dddD(pSB1C3) (8) |
11 | 3/28 dddD(pSB1C3) (9) |
12 | 3/28 dddD(pSB1C3) (10) |
13 | 1kbp ladder |