Difference between revisions of "Team:Tec-Monterrey/Notebook"

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Pre-Interlab: Transformation Practice (p. 25, 07/13/18)
+
<h2><strong>Pre-Interlab: Transformation Practice</strong><span style="font-weight: 400;"> (p. 25, 07/13/18)</span></h2>
 +
<p>&nbsp;</p>
 +
<p><span style="font-weight: 400;">Starting time: 11:45 am</span></p>
 +
<p>&nbsp;</p>
 +
<p><strong>Antibiotic stock solutions</strong><span style="font-weight: 400;"> (Carlos)</span></p>
 +
<ul>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">Ampicillin 100 mg/ml</span></li>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">Chloramphenicol 35 mg/ml</span></li>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">Kanamycin 35 mg/ml</span></li>
 +
</ul>
 +
<p>&nbsp;</p>
 +
<p><strong>LB Medium (without agar) </strong><span style="font-weight: 400;">(Jes&uacute;s)</span></p>
 +
<ul>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">25 g/L, 500 ml of medium</span></li>
 +
</ul>
 +
<p>&nbsp;</p>
 +
<p><strong>LB Medium (with agar) </strong><span style="font-weight: 400;">(Jes&uacute;s)</span></p>
 +
<ul>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">25 g/L, 500 ml of medium</span></li>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">15 g/L of agar, 500 ml of medium</span></li>
 +
</ul>
 +
<p>&nbsp;</p>
 +
<p><strong>Medium LB and silica spheres are put inside autoclave</strong></p>
 +
<ul>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">121&deg;C for 15 minutes</span></li>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">Materials left inside fume hood, with 15 min. of UV light</span></li>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">Bain-marie prepared, 42&deg;C</span></li>
 +
</ul>
 +
<p>&nbsp;</p>
 +
<p>&nbsp;</p>
 +
<hr />
 +
<p>&nbsp;</p>
 +
<h2><strong>Pre-Interlab: Transformation Practice</strong><span style="font-weight: 400;"> (p. 25, 07/13/18)</span></h2>
 +
<p>&nbsp;</p>
 +
<p><strong>Transformations </strong><span style="font-weight: 400;">(Samantha)</span></p>
 +
<ul>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">4 Petris, 23K + antibiotic, 8P + antibiotic, 23K w/o antibiotic, competent w/o antibiotic</span></li>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">Positive control: 8P, dish 3, kit 2018: BBa_I20270 (GFP)</span></li>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">1: 23K, dish 3, kit 2018: BBa_I763007 (RFP)</span></li>
 +
</ul>
 +
<p>&nbsp;</p>
 +
<p><strong>DNA from plates to Eppendorfs</strong></p>
 +
<ul>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">1: 50 &mu;L CC, 1 &mu;L 23K</span></li>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">2: 50 &mu;L CC, 1 &mu;L 23K</span></li>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">3: 50 &mu;L CC, 1 &mu;L 8P</span></li>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">4: 50 &mu;L CC</span></li>
 +
</ul>
 +
<p>&nbsp;</p>
 +
<p><strong>Plates </strong><span style="font-weight: 400;">(Victor)</span></p>
 +
<ul>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">20 ml LB with agar for all plates</span></li>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">20 &mu;L of Chloramphenicol when needed</span></li>
 +
</ul>
 +
<p>&nbsp;</p>
 +
<p><strong>Heat Shock </strong><span style="font-weight: 400;">(Samantha)</span></p>
 +
<ul>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">1-4: 1 minute, 42&deg;C, then 5 minutes on ice + 200 &mu;L LB to each tube</span></li>
 +
</ul>
 +
<p><span style="font-weight: 400;">Note</span><span style="font-weight: 400;">: iGEM protocol says 450 ml of SOC, but instead we used 200 &mu;L of LB</span></p>
 +
<p>&nbsp;</p>
 +
<p><strong>Incubations </strong></p>
 +
<ul>
 +
<li style="font-weight: 400;"><span style="font-weight: 400;">37&deg;C and 220 rpm, during 1 hour (6:03-7:03 pm)</span></li>
 +
</ul>
 +
<p>&nbsp;</p>
 +
<hr />
 +
<p>&nbsp;</p>
  
Starting time: 11:45 am
+
                </div>
 +
              </li>
 +
              <li>
 +
                <div class="collapsible-header">Week 2: 16-22</div>
 +
                <div class="collapsible-body">
  
Antibiotic stock solutions (Carlos)
+
Interlab: Plate 7 Transformations (p. 28-29, 07/17/18-07/18/18)
Ampicillin 100 mg/ml
+
Chloramphenicol 35 mg/ml
+
Kanamycin 35 mg/ml
+
  
LB Medium (without agar) (Jesús)
+
Devices
25 g/L, 500 ml of medium
+
Wells
 +
Eppendorf
 +
Ctrl(-).BBa_R0040
 +
7-2D, 7-4D, 7-21D, 6-20D, 2-6F
 +
(-)
 +
Ctrl(+).BBa_I20270
 +
7-2B, 7-4B, 7-21B, 6-20B, 3-8F
 +
(+)
 +
D1.BBa_J364000
 +
7-2F, 7-4F, 7-21F, 6-20F
 +
1
 +
D2.BBa_J364001
 +
7-2H, 7-4H. 7-21H, 6-20H
 +
2
 +
D3.BBa_J364002
 +
7-2J, 7-4J, 7-21J, 6-20J
 +
3
 +
D4.BBa_J364003
 +
7-2L, 7-4L
 +
4
 +
D5.BBa_J364004
 +
7-2N, 7-4N
 +
5
 +
D6.BBa_J364005
 +
7-2P, 7-4P
 +
6
  
LB Medium (with agar) (Jesús)
+
DNA Resuspension (Samantha)
25 g/L, 500 ml of medium
+
With respect to the wells on plate 7
15 g/L of agar, 500 ml of medium
+
  
Medium LB and silica spheres are put inside autoclave
+
Competent cells
121°C for 15 minutes
+
50 μL to each Eppendorf duplicate
Materials left inside fume hood, with 15 min. of UV light
+
Bain-marie prepared, 42°C
+
  
 +
Resuspended DNA
 +
2 μL were added to each Eppendorf duplicate
  
 +
Colonies
  
Pre-Interlab: Transformation Practice (p. 25, 07/13/18)
 
  
Transformations (Samantha)
 
4 Petris, 23K + antibiotic, 8P + antibiotic, 23K w/o antibiotic, competent w/o antibiotic
 
Positive control: 8P, dish 3, kit 2018: BBa_I20270 (GFP)
 
1: 23K, dish 3, kit 2018: BBa_I763007 (RFP)
 
  
DNA from plates to Eppendorfs
 
1: 50 μL CC, 1 μL 23K
 
2: 50 μL CC, 1 μL 23K
 
3: 50 μL CC, 1 μL 8P
 
4: 50 μL CC
 
  
Plates (Victor)
+
1.1
20 ml LB with agar for all plates
+
1.2
20 μL of Chloramphenicol when needed
+
1.3
 +
2.1
 +
2.2
 +
2.3
 +
3.1
 +
3.2
 +
3.3
 +
4.1
 +
4.2
 +
4.3
 +
D3
 +
388
 +
417
 +
381
 +
536
 +
491
 +
523
 +
498
 +
452
 +
575
 +
548
 +
559
 +
300
 +
D4
 +
71
 +
167
 +
213
 +
223
 +
200
 +
197
 +
255
 +
242
 +
165
 +
116
 +
269
 +
281
 +
D5
 +
15
 +
52
 +
61
 +
65
 +
50
 +
218
 +
55
 +
78
 +
50
 +
56
 +
79
 +
97
  
Heat Shock (Samantha)
 
1-4: 1 minute, 42°C, then 5 minutes on ice + 200 μL LB to each tube
 
Note: iGEM protocol says 450 ml of SOC, but instead we used 200 μL of LB
 
  
Incubations
 
37°C and 220 rpm, during 1 hour (6:03-7:03 pm)
 
 
 
 
Interlab: Phase 1 and Preparations (p. 26-27, 07/15/18-07/16/18)
 
 
SOC medium preparation (NCb BioLabs, Thermo Fisher)
 
2% Tryptone
 
0.5% yeast extract
 
10 mM NaCl
 
2.5 mM KCl
 
10 mM MgCl2
 
10 mM MgSO4
 
20 mM Glucose
 
 
SOB medium preparation
 
2% Tryptone
 
0.5% yeast extract
 
10 mM NaCl
 
2.5 mM KCl
 
10 mM MgCl2
 
10 mM MgSO4
 
 
Buffer CCMB80 1L preparation
 
10 mM KOAc ph 7.0
 
80 mM CaCl2
 
20 mM MnCl2
 
10 mM MgCl2
 
 
Growth
 
In 200 ml of SOC
 
Notes: iGEM protocol says 250 ml SOB, instead 200 ml were used
 
There’s less overnight, so initial absorbance will be less than 0.1
 
 
Optical density
 
3:00 pm, 0.3
 
3:52 pm, 0.465
 
Note: For buffer resuspension, 20 ml were used instead of 80 ml
 
 
RFP transformation after 16 hours
 
12 hours: 1-2 colonies, low expression
 
16 hours: 3-4 colonies, medium expression
 
 
Second competents batch
 
Previous results were successful, so iGEM (buffer CCMB80) protocol will be repeated.
 
Absorbance before first resuspension: 0.482
 
Resuspension in 20 ml of buffer
 
Absorbance after resuspension: 0.444
 
 
                </div>
 
              </li>
 
              <li>
 
                <div class="collapsible-header">May 6</div>
 
                <div class="collapsible-body">
 
                  This is text for May 6
 
 
                 </div>  
 
                 </div>  
 
               </li>
 
               </li>

Revision as of 13:06, 17 October 2018

Notebook
Everyday activities by the team
  • July
    • Week 1: 9-15

      Pre-Interlab: Transformation Practice (p. 25, 07/13/18)

       

      Starting time: 11:45 am

       

      Antibiotic stock solutions (Carlos)

      • Ampicillin 100 mg/ml
      • Chloramphenicol 35 mg/ml
      • Kanamycin 35 mg/ml

       

      LB Medium (without agar) (Jesús)

      • 25 g/L, 500 ml of medium

       

      LB Medium (with agar) (Jesús)

      • 25 g/L, 500 ml of medium
      • 15 g/L of agar, 500 ml of medium

       

      Medium LB and silica spheres are put inside autoclave

      • 121°C for 15 minutes
      • Materials left inside fume hood, with 15 min. of UV light
      • Bain-marie prepared, 42°C

       

       


       

      Pre-Interlab: Transformation Practice (p. 25, 07/13/18)

       

      Transformations (Samantha)

      • 4 Petris, 23K + antibiotic, 8P + antibiotic, 23K w/o antibiotic, competent w/o antibiotic
      • Positive control: 8P, dish 3, kit 2018: BBa_I20270 (GFP)
      • 1: 23K, dish 3, kit 2018: BBa_I763007 (RFP)

       

      DNA from plates to Eppendorfs

      • 1: 50 μL CC, 1 μL 23K
      • 2: 50 μL CC, 1 μL 23K
      • 3: 50 μL CC, 1 μL 8P
      • 4: 50 μL CC

       

      Plates (Victor)

      • 20 ml LB with agar for all plates
      • 20 μL of Chloramphenicol when needed

       

      Heat Shock (Samantha)

      • 1-4: 1 minute, 42°C, then 5 minutes on ice + 200 μL LB to each tube

      Note: iGEM protocol says 450 ml of SOC, but instead we used 200 μL of LB

       

      Incubations

      • 37°C and 220 rpm, during 1 hour (6:03-7:03 pm)

       


       

    • Week 2: 16-22
      Interlab: Plate 7 Transformations (p. 28-29, 07/17/18-07/18/18) Devices Wells Eppendorf Ctrl(-).BBa_R0040 7-2D, 7-4D, 7-21D, 6-20D, 2-6F (-) Ctrl(+).BBa_I20270 7-2B, 7-4B, 7-21B, 6-20B, 3-8F (+) D1.BBa_J364000 7-2F, 7-4F, 7-21F, 6-20F 1 D2.BBa_J364001 7-2H, 7-4H. 7-21H, 6-20H 2 D3.BBa_J364002 7-2J, 7-4J, 7-21J, 6-20J 3 D4.BBa_J364003 7-2L, 7-4L 4 D5.BBa_J364004 7-2N, 7-4N 5 D6.BBa_J364005 7-2P, 7-4P 6 DNA Resuspension (Samantha) With respect to the wells on plate 7 Competent cells 50 μL to each Eppendorf duplicate Resuspended DNA 2 μL were added to each Eppendorf duplicate Colonies 1.1 1.2 1.3 2.1 2.2 2.3 3.1 3.2 3.3 4.1 4.2 4.3 D3 388 417 381 536 491 523 498 452 575 548 559 300 D4 71 167 213 223 200 197 255 242 165 116 269 281 D5 15 52 61 65 50 218 55 78 50 56 79 97
  • August
    • Week 1: 1-5
      This is text for Week 1
    • Week 2: 6-12
      This is text for Week 1
    • Week 3: 13-19
      This is text for Week 1
    • Week 4: 20-26
      This is text for Week 1
    • Week 5: 27-31
      This is text for Week 1
  • September
    • Week 1: 1-2
      This is text for Week 1
    • Week 2: 3-9
      This is text for Week 1
    • Week 3: 10-16
      This is text for Week 1
    • Week 4: 17-23
      This is text for Week 1
    • Week 5: 24-30
      This is text for Week 1
  • October
    • Week 1: 1-7
      This is text for Week 1
    • Week 2: 8-14
      This is text for Week 1
    • Week 3: 15-17
      This is text for Week 1
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