Template:Kyoto/Notebook/Aug 21

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*material
*material
:*8/17 Plusgrow medium 50ml
:*8/17 Plusgrow medium 50ml
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:*7/22 5000x　Ampicillin 10µl
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:*7/22 5000x Ampicillin 10µl
# Measuring materials and putting them in a 50ml tube
# Measuring materials and putting them in a 50ml tube
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===Gel Extraction===
===Gel Extraction===
<div class="experiment">
<div class="experiment">
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<span class="author">Nakamoto and TaTsui</span>
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<span class="author">Nakamoto and Tatsui</span>
{| class="wikitable"
{| class="wikitable"
!Lane||DNA||Enzyme
!Lane||DNA||Enzyme
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|}
[[File:Igku Aug21 Gel Extraction(Ptet‐(1))before.jpg]]
[[File:Igku Aug21 Gel Extraction(Ptet‐(1))before.jpg]]
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[[File:xxxx.jpg]]
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[[File:Igku Aug21 Gel Extraction 2-2.jpg]]
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[[fig after]]
 
{| class="wikitable"
{| class="wikitable"
!Name||concentration[&micro;g/mL]||260/280||260/230
!Name||concentration[&micro;g/mL]||260/280||260/230
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|3||8/20 DT||EcoRI||XbaI
|3||8/20 DT||EcoRI||XbaI
|}
|}
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[[File:Igku Aug20 Electrophoresis2(RBS‐lysis3-1).jpg]]<br>
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[[File:Igku Aug21 Electrophoresis(J23100‐RBS,DT-E+X)bykojima.jpg ]]<br>
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|4
|4
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|}
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[[File:Igku_Aug21_Gel_Extraction(DT_EcoRI+XbaI_12,5μL①)before.jpg]]<br>
 
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[[File:Igku_Aug21_Gel_Extraction(DT_EcoRI+XbaI_12,5μL②)after.jpg]]<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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