Template:Kyoto/Notebook/Sep 3

From 2013.igem.org

(Difference between revisions)
(→Electrophoresis)
(→Gel Extraction)
Line 352: Line 352:
|1 ||100bp ladder ||
|1 ||100bp ladder ||
|-
|-
-
|3 ||pT181 attenuater||EcoR1&Spe1
+
|3 ||pT181 attenuator||EcoRI&SpeI
|-
|-
-
|4 ||pT181 attenuater||EcoR1&Spe1
+
|4 ||pT181 attenuator||EcoRI&SpeI
|-
|-
-
|6 ||pT181 attenuater||Xba1&Pst1
+
|6 ||pT181 attenuator||XbaI&PstI
|-
|-
-
|7 ||pT181 attenuater||Xba1&Pst1
+
|7 ||pT181 attenuator||XbaI&PstI
|-
|-
-
|9 ||pT181 antisense||EcoR1&Spe1
+
|9 ||pT181 antisense||EcoRI&SpeI
|-
|-
-
|10 ||pT181 antisense||EcoR1&Spe1
+
|10 ||pT181 antisense||EcoRI&SpeI
|}
|}
[[File:Igku Sep3 Electrophoresis(N4_1).jpg]]<br>
[[File:Igku Sep3 Electrophoresis(N4_1).jpg]]<br>
Line 370: Line 370:
|1 ||100bp ladder ||
|1 ||100bp ladder ||
|-
|-
-
|2 ||pT181 antisense||Xba1&Pst1
+
|2 ||pT181 antisense||XbaI&PstI
|-
|-
-
|3 ||pT181 antisense||Xba1&Pst1
+
|3 ||pT181 antisense||XbaI&PstI
|-
|-
-
|5 ||apt12_1R||EcoR1&Spe1
+
|5 ||apt12_1R||EcoRI&SpeI
|-
|-
-
|6 ||apt12_1R||EcoR1&Spe1
+
|6 ||apt12_1R||EcoRI&SpeI
|}
|}
[[File:Igku Sep3 Electrophoresis(N4_2).jpg]]<br>
[[File:Igku Sep3 Electrophoresis(N4_2).jpg]]<br>
Line 384: Line 384:
|1 ||100bp ladder ||
|1 ||100bp ladder ||
|-
|-
-
|2 ||DT||EcoR1&Xba1
+
|2 ||DT||EcoRI&XbaI
|-
|-
-
|3 ||DT||EcoR1&Xba1
+
|3 ||DT||EcoRI&XbaI
|-
|-
-
|5 ||RBS-lysis1||EcoR1&Spe1
+
|5 ||RBS-lysis1|EcoRI&SpeI
|-
|-
-
|6 ||RBS-lysis1||EcoR1&Spe1
+
|6 ||RBS-lysis1||EcoRI&SpeI
|}
|}
[[File:Igku Sep3 Electrophoresis(N5_3).jpg]]<br>
[[File:Igku Sep3 Electrophoresis(N5_3).jpg]]<br>
Line 398: Line 398:
|1 ||100bp ladder ||
|1 ||100bp ladder ||
|-
|-
-
|2 ||RBS-lysis2||EcoR1&Spe1
+
|2 ||RBS-lysis2||EcoRI&SpeI
|-
|-
-
|3 ||RBS-lysis2||EcoR1&Spe1
+
|3 ||RBS-lysis2||EcoRI&SpeI
|-
|-
-
|5 ||RBS-lysis3||EcoR1&Spe1
+
|5 ||RBS-lysis3||EcoRI&SpeI
|-
|-
-
|6 ||RBS-lysis3||EcoR1&Spe1
+
|6 ||RBS-lysis3||EcoRI&SpeI
|}
|}
[[File:Igku Sep3 Electrophoresis(N5_4).jpg]]<br>
[[File:Igku Sep3 Electrophoresis(N5_4).jpg]]<br>
Line 410: Line 410:
!Name||concentration[&micro;g/mL]||260/280||260/230
!Name||concentration[&micro;g/mL]||260/280||260/230
|-
|-
-
|pT181 attenuater(EcoR1&Spe1)||10.0 ||1.86 ||0.39
+
|pT181 attenuator(EcoRI&SpeI)||10.0 ||1.86 ||0.39
|-
|-
-
|pT181 attenuater(Xba1&Pst1) ||11.7 ||1.65 ||0.36
+
|pT181 attenuator(XbaI&PstI) ||11.7 ||1.65 ||0.36
|-
|-
-
|pT181 antisense(EcoR1&Spe1) ||4.2 ||1.95 ||0.25
+
|pT181 antisense(EcoRI&SpeI) ||4.2 ||1.95 ||0.25
|-
|-
-
|pT181 antisense(Xba1&Pst1)||6.6 ||1.78 ||0.33
+
|pT181 antisense(XbaI&PstI)||6.6 ||1.78 ||0.33
|-
|-
-
|tRNA 12_1R apt(EcoR1&Spe1)||5.7 ||1.73 ||0.29
+
|tRNA 12_1R apt(EcoRI&SpeI)||5.7 ||1.73 ||0.29
|-
|-
-
|DT(EcoR1&Xba1) ||16.6 ||1.99 ||0.76
+
|DT(EcoRI&XbaI) ||16.6 ||1.99 ||0.76
|-
|-
-
|RBS-lysis1(EcoR1&Spe1)||8.8 ||1.65 ||0.32
+
|RBS-lysis1(EcoRI&SpeI)||8.8 ||1.65 ||0.32
|-
|-
-
|RBS-lysis2(EcoR1&Spe1)||13.4 ||1.61 ||0.48
+
|RBS-lysis2(EcoRI&SpeI)||13.4 ||1.61 ||0.48
|-
|-
-
|RBS-lysis3(EcoR1&Spe1)||10.2 ||2.19 ||0.51
+
|RBS-lysis3(EcoRI&SpeI)||10.2 ||2.19 ||0.51
|}
|}
</div>
</div>

Revision as of 16:10, 25 September 2013

Contents

Sep 3

Electrophoresis

Kozima

LaneSample
1100bp ladder
2pT181 attenuator(2)-DT2(738)
3Ptet-RBS-lacZα-DT-2(756)
4Ptet-RBS-lacZα-DT-3
5Ptet-RBS-lacZα-DT-4
6Ptet-RBS-lacZα-DT-5
7Ptet-RBS-lacZα-DT-6
8RBS-lysis2-DT-2(985)
9RBS-lysis2-DT-3
10100bp ladder

Igku Sep3 Electrophoresis(N1).jpg

Miniprep

Tatsui

DNAconcentration[µg/mL]260/280260/230
9/2 14:00 pT181 attenuator418.41.821.80
9/2 14:00 pT181 antisense362.21.921.96
9/2 14:00 Spinach438.31.861.99
9/2 14:00 tetR-apt 12_1R567.51.901.99
9/2 21:00 pT181 attenuator320.91.902.15
9/2 21:00 Spinach457.01.882.24

Liquid Culture

Kozima

Samplemedium
Spinach-DT(9/2 master plate)plusgrow(CP)4ml

Restriction Enzyme Digestion

Kozima

DNAEcoR1Spe1Xba1Pst110xBuffer B(EcoR1&Spe1)10xBuffer D(Xba1&Pst1)100xBSAMilliQtotal
9/3 pT181attenuator 14:00 418.4ng/µL 4.8µL 1.0µL 1.0µL 0µL 0µL 3µL 0µL 0.3µL 19.9µL 30µL
9/3 pT181attenuator 14:00 418.4ng/µL 0.2µL 0µL 0µL 0µL 0µL 1µL 0µL 0.1µL 8.7µL 10µL
9/3 pT181attenuator 14:00 418.4ng/µL 4.8µL 0µL 0µL 1.0µL 1.0µL 0µL 3µL 0.3µL 19.9µL 30µL
9/3 pT181attenuator 14:00 418.4ng/µL 0.2µL 0µL 0µL 0µL 0µL 0µL 1µL 0.1µL 8.7µL 10µL
DNAEcoR1Spe1Xba1Pst110xBuffer B(EcoR1&Spe1)10xBuffer D(Xba1&Pst1)100xBSAMilliQtotal
9/3 pT181antisense 14:00 362.2ng/µL 5.5µL 1.0µL 1.0µL 0µL 0µL 3µL 0µL 0.3µL 19.2µL 30µL
9/3 pT181attenuator 14:00 418.4ng/µL 0.3µL 0µL 0µL 0µL 0µL 1µL 0µL 0.1µL 8.6µL 10µL
9/3 pT181attenuator 14:00 418.4ng/µL 5.5µL 0µL 0µL 1.0µL 1.0µL 0µL 3µL 0.3µL 19.2µL 30µL
9/3 pT181attenuator 14:00 418.4ng/µL 0.3µL 0µL 0µL 0µL 0µL 0µL 1µL 0.1µL 8.6µL 10µL
DNAEcoR1Spe110xBuffer B100xBSAMilliQtotal
9/3 apt 12_1R 14:00 507.5ng/µL 3.9µL 1.0µL 1.0µL 3µL 0.3µL 20.8µL 30µL
9/3 apt 12_1R 14:00 507.5ng/µL 0.2µL 0µL 0µL 1µL 0.1µL 8.7µL 10µL
DNAEcoR1Xba110xBuffer D100xBSAMilliQtotal
8/29 DT 166.2ng/µL 12µL 1.0µL 1.0µL 3µL 0.3µL 12.7µL 30µL
8/29 DT 166.2ng/µL 0.6µL 0µL 0µL 1µL 0.1µL 8.3µL 10µL
DNAEcoR1Spe110xBuffer B100xBSAMilliQtotal
8/22 RBS-lysis1(2) 96ng/µL 21µL 1.0µL 1.0µL 3µL 0.3µL 3.7µL 30µL
8/22 RBS-lysis1(2) 96ng/µL 1.0µL 0µL 0µL 1µL 0.1µL 7.9µL 10µL
DNAEcoR1Spe110xBuffer B100xBSAMilliQtotal
8/30 RBS-lysis2 220ng/µL 9.1µL 1.0µL 1.0µL 3µL 0.3µL 15.6µL 30µL
8/30 RBS-lysis2 220ng/µL 0.5µL 0µL 0µL 1µL 0.1µL 8.4µL 10µL
DNAEcoR1Spe110xBuffer B100xBSAMilliQtotal
8/20 RBS-lysis3(1) 282ng/µL 7.1µL 1.0µL 1.0µL 3µL 0.3µL 17.6µL 30µL
8/20 RBS-lysis3(1) 282ng/µL 0.4µL 0µL 0µL 1µL 0.1µL 8.5µL 10µL

PCR

Hirano

Plac(1) plasmid 153.7ng/µL10x buffer KOD plus-ver.22mM dNTPs25mM MgSO4primer (KaiA_BsaI_Mut_fwd)primer (KaiA_BsaI_Mut_rer)KOD plus-ver.2MilliQtotal
0.13 2.52.51.50.750.750.516.3725
KaiB (plasmid) 20.2ng/µL10x buffer KOD plus-ver.22mM dNTPs25mM MgSO4primer (GG2_RBS_KaiB_fwd)primer (KaiB_GG3_rer)KOD plus-ver.2MilliQtotal
12.52.51.50.750.750.515.525
KaiC (plasmid) 4.4ng/µL10x buffer KOD plus-ver.22mM dNTPs25mM MgSO4primer primer KOD plus-ver.2MilliQtotal
12.52.51.50.750.750.515.525
DT-1 (plasmid) 153.7ng/µL10x buffer KOD plus-ver.22mM dNTPs25mM MgSO4primer primer KOD plus-ver.2MilliQtotal
0.12.52.51.50.750.750.516.425
PKaiBC(PCR product) 16.3ng/µL10x buffer KOD plus-ver.22mM dNTPs25mM MgSO4primer primer KOD plus-ver.2MilliQtotal
0.72.52.51.50.750.750.515.825
SasA(PCR product) 21.6ng/µL10x buffer KOD plus-ver.22mM dNTPs25mM MgSO4primer primer KOD plus-ver.2MilliQtotal
0.52.52.51.50.750.750.51625
RpaA(PCR product) 15.4ng/µL10x buffer KOD plus-ver.22mM dNTPs25mM MgSO4primer primer KOD plus-ver.2MilliQtotal
0.62.52.51.50.750.750.515.925
RpaB(PCR product) 26.7ng/µL10x buffer KOD plus-ver.22mM dNTPs25mM MgSO4primer primer KOD plus-ver.2MilliQtotal
0.42.52.51.50.750.750.516.125
PreDenatureDenatureAnnealingExtensioncycle
　94°C　98°C　　68°C--
5min 10sec　30sec　　30
PreDenatureDenatureAnnealingExtensioncycle
　94°C　98°C　　68°C--
5min 10sec　30sec　　30


Mutatation PCR

No name

KaiABC(12.6pg/µL)Primer(Kai_BsaIMut_fwd)Primer(Kai_BsaIMut_rer)Prime STAR Max PremixMilliQtotal
1 11252250
Primer(Kai_BsaIMut_fwd)Primer(Kai_BsaIMut_rer)Prime STAR Max PremixMilliQtotal
11252350
PreDenatureDenatureAnnealingExtensioncycle
　94°C　98°C　65°C　72°C--
5min10sec　15sec　40sec　30

Colony PCR

Samplebase pair
9/1 pT181antisense(pSB1C3)400bp
9/1 pT181antisense-DT547bp
PreDenatureDenatureAnnealingExtensioncycle
　94°C　94°C　55°C　68°C--
5m　30s　30s　30s　30

Electrophoresis

Kozima

LaneSample
1100bp ladder
29/1 pT181antisense(pSB1C3)
39/1 pT181antisense

Igku Sep3 Electrophoresis (N2).jpg

Electrophoresis

LaneSample
1 100bp ladder
2 attenuator EcoR1&Spe1
3 attenuator negative EcoR1&Spe1
4 attenuator Xba1&Pst1
5 attenuator negative Xba1&Pst1
6 antisense EcoR1&Spe1
7 antisense negative EcoR1&Spe1
8 100bp ladder
LaneSample
1 100bp ladder
2 antisense Xba1&Pst1
3 antisense negative Xba1&Pst1
4 apt EcoR1&Spe1
5 apt negative EcoR1&Spe1
6 DT EcoR1&Xba1
7 DT negative EcoR1&Xba1
8 100bp ladder

Igku Sep3 Electrophoresis(N3 2).jpg

LaneSample
1 100bp ladder
2 RBS-lysis1 EcoR1&Spe1
3 RBS-lysis1 negative
4 RBS-lysis2 EcoR1&Spe1
5 RBS-lysis2 negative
6 RBS-lysis3 EcoR1&Spe1
7 RBS-lysis3 negative
8 100bp ladder

Igku Sep3 Electrophoresis(N3 3).jpg

Gel Extraction

LaneDNAEnzyme
1 100bp ladder
3 pT181 attenuatorEcoRI&SpeI
4 pT181 attenuatorEcoRI&SpeI
6 pT181 attenuatorXbaI&PstI
7 pT181 attenuatorXbaI&PstI
9 pT181 antisenseEcoRI&SpeI
10 pT181 antisenseEcoRI&SpeI

Igku Sep3 Electrophoresis(N4 1).jpg

LaneDNAEnzyme
1 100bp ladder
2 pT181 antisenseXbaI&PstI
3 pT181 antisenseXbaI&PstI
5 apt12_1REcoRI&SpeI
6 apt12_1REcoRI&SpeI

Igku Sep3 Electrophoresis(N4 2).jpg

LaneDNAEnzyme
1 100bp ladder
2 DTEcoRI&XbaI
3 DTEcoRI&XbaI
5 EcoRI&SpeI
6 RBS-lysis1EcoRI&SpeI

Igku Sep3 Electrophoresis(N5 3).jpg

LaneDNAEnzyme
1 100bp ladder
2 RBS-lysis2EcoRI&SpeI
3 RBS-lysis2EcoRI&SpeI
5 RBS-lysis3EcoRI&SpeI
6 RBS-lysis3EcoRI&SpeI

Igku Sep3 Electrophoresis(N5 4).jpg

Nameconcentration[µg/mL]260/280260/230
pT181 attenuator(EcoRI&SpeI)10.0 1.86 0.39
pT181 attenuator(XbaI&PstI) 11.7 1.65 0.36
pT181 antisense(EcoRI&SpeI) 4.2 1.95 0.25
pT181 antisense(XbaI&PstI)6.6 1.78 0.33
tRNA 12_1R apt(EcoRI&SpeI)5.7 1.73 0.29
DT(EcoRI&XbaI) 16.6 1.99 0.76
RBS-lysis1(EcoRI&SpeI)8.8 1.65 0.32
RBS-lysis2(EcoRI&SpeI)13.4 1.61 0.48
RBS-lysis3(EcoRI&SpeI)10.2 2.19 0.51

Liquid Culture

No name

Samplemedium
8/16master plate7(DT)
8/21RBS-lysis1 　
Retrieved from "http://2013.igem.org/Template:Kyoto/Notebook/Sep_3"