Template:Kyoto/Notebook/Aug 21

From 2013.igem.org

(Difference between revisions)
(→Ligation)
(→Plusgrow Medium)
 
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Line 5: Line 5:
*material
*material
:*8/17 Plusgrow medium 50ml
:*8/17 Plusgrow medium 50ml
-
:*7/22 5000x　Ampicillin 10µl
+
:*7/22 5000x Ampicillin 10µl
# Measuring materials and putting them in a 50ml tube
# Measuring materials and putting them in a 50ml tube
</div>
</div>
Line 61: Line 61:
===Gel Extraction===
===Gel Extraction===
<div class="experiment">
<div class="experiment">
-
<span class="author">Nakamoto and TaTsui</span>
+
<span class="author">Nakamoto and Tatsui</span>
{| class="wikitable"
{| class="wikitable"
!Lane||DNA||Enzyme
!Lane||DNA||Enzyme
Line 83: Line 83:
|12
|12
|}
|}
-
[fig bifore][fig after]
+
[[File:Igku Aug21 Gel Extraction(Ptet‐(1))before.jpg]]
 +
[[File:Igku Aug21 Gel Extraction 2-2.jpg]]
 +
 
{| class="wikitable"
{| class="wikitable"
!Name||concentration[&micro;g/mL]||260/280||260/230
!Name||concentration[&micro;g/mL]||260/280||260/230
Line 101: Line 103:
<span class="author">Kojima and Nakamoto</span>
<span class="author">Kojima and Nakamoto</span>
{| class="wikitable"
{| class="wikitable"
-
!8/20 Ptet-(1) ||EcoRI||XbaI||10x BSA||10x buffer M||MilliQ||total
+
! ||8/20 Ptet-(1) ||EcoRI||XbaI||10x BSA||10x buffer M||MilliQ||total
|-
|-
-
|4.5||1||1||3||3||17.5||30
+
|2 cuts||4.5||1||1||3||3||17.5||30
|-
|-
-
|0.5||0.2||0||1||1||7.3||10
+
|1 cut||0.5||0.2||0||1||1||7.3||10
|-
|-
-
|0.5||0||0.2||1||1||7.3||10
+
|1 cut||0.5||0||0.2||1||1||7.3||10
|-
|-
-
|0.5||0||0||1||1||7.5||10
+
|NC||0.5||0||0||1||1||7.5||10
|}
|}
{| class="wikitable"
{| class="wikitable"
-
!8/20 Pconst-RBS-luxR-DT-(2) ||EcoRI||XbaI||10x BSA||10x buffer M||MilliQ||total
+
! ||8/20 Pconst-RBS-luxR-DT-(2) ||EcoRI||XbaI||10x BSA||10x buffer M||MilliQ||total
|-
|-
-
|2.9||1||1||3||3||19.1||30
+
|2 cuts||2.9||1||1||3||3||19.1||30
|-
|-
-
|0.3||0.2||0||1||1||7.5||10
+
|1 cut||0.3||0.2||0||1||1||7.5||10
|-
|-
-
|0.3||0||0.2||1||1||7.5||10
+
|1 cut||0.3||0||0.2||1||1||7.5||10
|-
|-
-
|0.3||0||0||1||1||7.7||10
+
|NC||0.3||0||0||1||1||7.7||10
|}
|}
{| class="wikitable"
{| class="wikitable"
-
!8/17 DT||EcoRI||XbaI||10x BSA||10x buffer M||MilliQ||total
+
! ||8/17 DT||EcoRI||XbaI||10x BSA||10x buffer M||MilliQ||total
|-
|-
-
|5.3||1||1||3||3||16.7||30
+
|2 cuts||5.3||1||1||3||3||16.7||30
|-
|-
-
|0.5||0.2||0||1||1||7.3||10
+
|1 cut||0.5||0.2||0||1||1||7.3||10
|-
|-
-
|0.5||0||0.2||1||1||7.3||10
+
|1 cut||0.5||0||0.2||1||1||7.3||10
|-
|-
-
|0.5||0||0||1||1||7.5||10
+
|NC||0.5||0||0||1||1||7.5||10
|}
|}
-
* incubate 37&deg;C 1h
+
* incubate at 37&deg;C for 1h
</div>
</div>
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|}
|}
* The reason why lane 2 and 15 were same is that the well of lane 2 might be broken.  
* The reason why lane 2 and 15 were same is that the well of lane 2 might be broken.  
-
[fig]<br>
+
[[File:Igku Aug21 Electorophoresis Rtet E+X.jpg]]<br>
<span class="author">Kojima</span>
<span class="author">Kojima</span>
{| class="wikitable"
{| class="wikitable"
Line 186: Line 188:
|3||8/20 DT||EcoRI||XbaI
|3||8/20 DT||EcoRI||XbaI
|}
|}
-
[fig]<br>
+
[[File:Igku Aug21 Electrophoresis(J23100‐RBS,DT-E+X)bykojima.jpg ]]<br>
</div>
</div>
Line 198: Line 200:
|1||1kb ladder||--
|1||1kb ladder||--
|-
|-
-
|2||8/21 J23100-RBS-luxR-DT 25&micro;L||E+X
+
|2||8/21 J23100-RBS-luxR-DT 25&micro;L||EcoRI+XbaI
|-
|-
-
|3||8/21 J23100-RBS-luxR-DT 25&micro;L||E+X
+
|3||8/21 J23100-RBS-luxR-DT 25&micro;L||EcoRI+XbaI
|-
|-
|4||--||--
|4||--||--
|-
|-
-
|5||8/21 Ptet 25&micro;L||E+X
+
|5||8/21 Ptet 25&micro;L||EcoRI+XbaI
|-
|-
-
|6||8/21 Ptet 25&micro;L||E+X
+
|6||8/21 Ptet 25&micro;L||EcoRI+XbaI
|}
|}
-
[[File:igku_xxbeforexx.xxx]]<br>
+
[[File:Igku Aug21 Gel Extraction(J23100,Ptet①)before.jpg]]<br>
-
[[File:igku_xxafterxx.xxx]]<br>
+
[[File:Igku Aug21 Gel Extraction(J23100,Ptet)after.jpg]]<br>
</div>
</div>
<!-- ここまでをコピーしてね -->
<!-- ここまでをコピーしてね -->
===Electrophoresis===
===Electrophoresis===
-
<!-- こっから -->
 
<div class="experiment">
<div class="experiment">
<span class="author">Honda</span>
<span class="author">Honda</span>
Line 230: Line 231:
|5||8/21 DT||--||--
|5||8/21 DT||--||--
|}
|}
-
[[File:igku_xxxxxx.xxx]]<br>
+
[[File:Igku_Aug21electrophoresis.jpg]]<br>
</div>
</div>
-
<!-- ここまでをコピーしてね -->
 
===Ligation===
===Ligation===
-
<!-- こっから -->
 
<div class="experiment">
<div class="experiment">
<span class="author">No name</span>
<span class="author">No name</span>
{| class="wikitable"
{| class="wikitable"
-
!Name||＋||NC
+
!state||colspan="2"|Vector||colspan="2"|Inserter||Ligation High ver.2||total
|-
|-
-
|8/21 Pcn-RBS-luxR-DT(+Amp)||2.3||2.3
+
|experiment||8/21 Pcn-RBS-luxR-DT(+Amp)||2.3||8/21 Pcn-RBS-GFP-DT||1.7||2||6
|-
|-
-
|8/21 Pcn-RBS-GFP-DT||1.7||0
+
|NC||8/21 Pcn-RBS-luxR-DT(+Amp)||2.3||MilliQ||1.7||2||6
|-
|-
-
|Ligation High buffer||2||2
+
|experiment||8/18 Plux(+CP)||1.1||8/19 RBS-GFP-DT||5||3.1||9.2
|-
|-
-
|MilliQ||0||1.7
+
|NC||8/18 Plux(+CP)||1.1||MilliQ||5||3.1||9.2
|-
|-
-
|total||6||6
+
|experiment||8/18 RBS(+Amp)||2.2||8/19 lysis1||6.0||4.1||12.3
-
|}
+
-
 
+
-
{| class="wikitable"
+
-
!Name||-?-||NC
+
|-
|-
-
|8/18 Plux(+CP)||1.1||1.1
+
|experiment||8/18 RBS(+Amp)||2.2||8/19 lysis2||3.6||2.9||8.7
|-
|-
-
|8/19 RBS-GFP-DT||5||0
+
|NC||8/18 RBS(+Amp)||2.2||MilliQ||3.6||2.9||8.7
|-
|-
-
|Ligation High buffer||3.1||3.1
+
|experiment||8/21 Ptet||1.5||8/20 RBS-tetR-DT (2)||2.1||1.8||5.4
|-
|-
-
|MilliQ||0||5
+
|NC||8/21 Ptet||1.5||MilliQ||2.1||1.8||5.4
-
|-
+
-
|total||9.2||9.2
+
|}
|}
-
{| class="wikitable"
 
-
!Name||-?-||NC
 
-
|-
 
-
|8/18 RBS(+Amp)||2.2||--
 
-
|-
 
-
|8/19 lysis1||6.0||--
 
-
|-
 
-
|Ligation High buffer||4.1||--
 
-
|-
 
-
|MilliQ||0||--
 
-
|-
 
-
|total||12.3||--
 
-
|}
 
-
{| class="wikitable"
 
-
!Name||-?-||NC
 
-
|-
 
-
|8/18 RBS(+Amp)||2.2||2.2
 
-
|-
 
-
|8/19 lysis2||3.6||0
 
-
|-
 
-
|Ligation High buffer||2.9||2.9
 
-
|-
 
-
|MilliQ||0||3.6
 
-
|-
 
-
|total||8.7||8.7
 
-
|}
 
</div>
</div>
-
<!-- ここまでをコピーしてね -->
 
===Transformation===
===Transformation===
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|4
|4
|}
|}
-
[[File:igku_xxbeforexx.xxx]]<br>
 
-
[[File:igku_xxafterxx.xxx]]<br>
 
</div>
</div>

Latest revision as of 03:45, 28 September 2013

Contents

Aug 21

Plusgrow Medium

Tatsui

  • material
  • 8/17 Plusgrow medium 50ml
  • 7/22 5000x Ampicillin 10µl
  1. Measuring materials and putting them in a 50ml tube

Liquid culture

Tatsui

Samplemedium
8/20 tRNA-spinach -(1)8/21 Plusgrow medium(+Amp)
8/20 tRNA-spinach -(2)8/21 Plusgrow medium(+Amp)
8/20 TetR-aptamer 12_P(1076) -(1)8/21 Plusgrow medium(+Amp)
8/20 TetR-aptamer 12_P(1076) -(2)8/21 Plusgrow medium(+Amp)
8/20 TetR-aptamer 12_1R(113) -(1)8/21 Plusgrow medium(+Amp)
8/20 TetR-aptamer 12_1R(113) -(2)8/21 Plusgrow medium(+Amp)
8/20 TetR-aptamer 12_1M(105) -(1) 8/21 Plusgrow medium(+Amp)
8/20 TetR-aptamer 12_1M(105) -(2)8/21 Plusgrow medium(+Amp)
8/20 PT181 attenuator -(1)8/21 Plusgrow medium(+Amp)
8/20 PT181 attenuator -(2)8/21 Plusgrow medium(+Amp)
8/20 Fusion1 attenuator -(1) 8/21 Plusgrow medium(+Amp)
8/20 Fusion1 attenuator -(2) 8/21 Plusgrow medium(+Amp)
8/20 Fusion3m2 attenuator -(1) 8/21 Plusgrow medium(+Amp)
8/20 Fusion3m2 attenuator -(2) 8/21 Plusgrow medium(+Amp)
8/20 PT181 antisense -(1) 8/21 Plusgrow medium(+Amp)
8/20 PT181 antisense -(2) 8/21 Plusgrow medium(+Amp)
8/20 Fusion1 antisense -(1) 8/21 Plusgrow medium(+Amp)
8/20 Fusion1 antisense -(2) 8/21 Plusgrow medium(+Amp)
8/20 Fusion6 antisense -(1) 8/21 Plusgrow medium(+Amp)
8/20 Fusion6 antisense -(2) 8/21 Plusgrow medium(+Amp)
  • incubate 37°C 10hour

Gel Extraction

Nakamoto and Tatsui

LaneDNAEnzyme
11kbp ladder--
28/20 Ptet -(1)EcoRI & XbaI
3
58/20 RBS-tetR-DT -(2)EcoRI & SpeI
6
88/20 Pconst-RBS-GFP-DT -(1)EcoRI & SpeI
9
118/20 RBS-lysis3 -(1)EcoRI & SpeI
12

Igku Aug21 Gel Extraction(Ptet‐(1))before.jpg Igku Aug21 Gel Extraction 2-2.jpg

Nameconcentration[µg/mL]260/280260/230
Ptet (EcoRI & XbaI)211.550.78
RBS-tetR-DT (EcoRI & SpeI)121.450.62
Pconst-RBS-GFP-DT (EcoRI & SpeI)111.360.60
RBS-lysis3 (EcoRI & SpeI)101.260.50

Ristriction Enzyme Digestion

Kojima and Nakamoto

8/20 Ptet-(1) EcoRIXbaI10x BSA10x buffer MMilliQtotal
2 cuts4.5113317.530
1 cut0.50.20117.310
1 cut0.500.2117.310
NC0.500117.510
8/20 Pconst-RBS-luxR-DT-(2) EcoRIXbaI10x BSA10x buffer MMilliQtotal
2 cuts2.9113319.130
1 cut0.30.20117.510
1 cut0.300.2117.510
NC0.300117.710
8/17 DTEcoRIXbaI10x BSA10x buffer MMilliQtotal
2 cuts5.3113316.730
1 cut0.50.20117.310
1 cut0.500.2117.310
NC0.500117.510
  • incubate at 37°C for 1h

Electrophoresis

Kojima and Nakamoto

LaneSampleEnzyme1Enzyme2
11kbp ladder----
28/20 Ptet -(1)EcoRIXbaI
38/20 Ptet -(1)EcoRI--
48/20 Ptet -(1)--XbaI
58/20 Ptet -(1)----
68/20 J23100-RBS-luxR-DT -(2)EcoRIXbaI
78/20 J23100-RBS-luxR-DT -(2)EcoRI--
88/20 J23100-RBS-luxR-DT -(2)--XbaI
98/20 J23100-RBS-luxR-DT -(2)----
108/20 DTEcoRIXbaI
118/20 DTEcoRI--
128/20 DT--XbaI
138/20 DT----
141kbp ladder----
158/20 Ptet -(1)EcoRIXbaI
  • The reason why lane 2 and 15 were same is that the well of lane 2 might be broken.

Igku Aug21 Electorophoresis Rtet E+X.jpg
Kojima

LaneSampleEnzyme1Enzyme2
11kbp ladder----
28/20 J23100-RBS-luxR-DT -(2)EcoRIXbaI
38/20 DTEcoRIXbaI

Igku Aug21 Electrophoresis(J23100‐RBS,DT-E+X)bykojima.jpg

Gel Extraction

Honda

LaneDNAEnzyme
11kb ladder--
28/21 J23100-RBS-luxR-DT 25µLEcoRI+XbaI
38/21 J23100-RBS-luxR-DT 25µLEcoRI+XbaI
4----
58/21 Ptet 25µLEcoRI+XbaI
68/21 Ptet 25µLEcoRI+XbaI

Igku Aug21 Gel Extraction(J23100,Ptet①)before.jpg
Igku Aug21 Gel Extraction(J23100,Ptet)after.jpg

Electrophoresis

Honda

LaneSampleEcoRIXbaI
11kb ladder----
28/21 DT++
38/21 DT+--
48/21 DT--+
58/21 DT----

Igku Aug21electrophoresis.jpg

Ligation

No name

stateVectorInserterLigation High ver.2total
experiment8/21 Pcn-RBS-luxR-DT(+Amp)2.38/21 Pcn-RBS-GFP-DT1.726
NC8/21 Pcn-RBS-luxR-DT(+Amp)2.3MilliQ1.726
experiment8/18 Plux(+CP)1.18/19 RBS-GFP-DT53.19.2
NC8/18 Plux(+CP)1.1MilliQ53.19.2
experiment8/18 RBS(+Amp)2.28/19 lysis16.04.112.3
experiment8/18 RBS(+Amp)2.28/19 lysis23.62.98.7
NC8/18 RBS(+Amp)2.2MilliQ3.62.98.7
experiment8/21 Ptet1.58/20 RBS-tetR-DT (2)2.11.85.4
NC8/21 Ptet1.5MilliQ2.11.85.4


Transformation

Okazaki

NameSampleCompetent CellsTotalPlate
8/21 Pcon-RBS-GFP-DT+Pcon-RBS-GFP-DT1µL10µL11µLAmp
8/21 Pcon-RBS-GFP-DT NC1µL10µL11µLAmp
8/18 RBS+8/19 lysis11µL10µL11µLAmp
8/18 RBS+8/19 lysis21µL10µL11µLAmp
8/18 RBS NC1µL10µL11µLAmp
8/18 Plux+8/18 RBS-GFP-DT1µL10µL11µLCP
8/18 Plux+8/18 RBS-GFP-DT1µL10µL11µLCP
8/21 Ptet(pm)+8/20 RBS-tetR-DT(2)1µL10µL11µLCP
8/21 Ptet(pm)+8/20 RBS-tetR-DT(2) NC1µL10µL11µLCP
8/21 pSB1C31µL10µL11µLCP

LB Medium Plate

Gel Extraction

Okazaki

LaneDNAEnzyme
11kb ladder--
2----
38/21 DTEcoRI & XbaI
4

Miniprep

Tatsui, Kojima, and Nakamoto

DNAconcentration [µg/mL]260/280260/230
tRNA-spinach-(1)2341.642.14
tRNA-spinach-(2)4401.601.91
tetR-aptamer 12-p(1076)-(1)1501.612.03
tetR-aptamer 12-p(1076)-(2)3741.451.66
tetR-aptamer 12-1R(113)-(1)3041.682.21
tetR-aptamer 12-1R(113)-(2)3821.471.66
tetR-aptamer 12-1M(105)-(1)3741.682.20
tetR-aptamer 12-1M(105)-(2)2861.311.43
PT181 attenuator-(1)3301.662.11
PT181 attenuator-(2)2701.682.18
Fusion1 attenuator-(1)3061.672.20
Fusion1 attenuator-(2)2821.601.94
Fusion3m2 attenuator-(1)3321.682.25
Fusion3m2 attenuator-(2)3261.672.10
PT181 antisense-(1)1781.641.68
PT181 antisense-(2)1161.631.95
Fusion1 antisense-(1)3001.672.21
Fusion1 antisense-(2)1641.421.46
Fusion6 antisense-(1)3361.652.18
Fusion6 antisense-(2)1921.652.01
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