Team:Kyoto/Notebook
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+ | {{Kyoto/Notebook/Aug_8}} | ||
+ | {{Kyoto/Notebook/Aug_9}} | ||
+ | {{Kyoto/Notebook/Aug_10}} | ||
+ | {{Kyoto/Notebook/Aug_11}} | ||
+ | {{Kyoto/Notebook/Aug_15}} | ||
+ | {{Kyoto/Notebook/Aug_16}} | ||
+ | {{Kyoto/Notebook/Aug_17}} | ||
+ | {{Kyoto/Notebook/Aug_18}} | ||
+ | {{Kyoto/Notebook/Aug_19}} | ||
+ | {{Kyoto/Notebook/Aug_20}} | ||
+ | {{Kyoto/Notebook/Aug_21}} | ||
+ | {{Kyoto/Notebook/Aug_22}} | ||
+ | {{Kyoto/Notebook/Aug_23}} | ||
+ | {{Kyoto/Notebook/Aug_24}} | ||
+ | {{Kyoto/Notebook/Aug_25}} | ||
+ | {{Kyoto/Notebook/Aug_26}} | ||
+ | {{Kyoto/Notebook/Aug_27}} | ||
+ | {{Kyoto/Notebook/Aug_28}} | ||
+ | {{Kyoto/Notebook/Aug_29}} | ||
+ | {{Kyoto/Notebook/Aug_30}} | ||
+ | {{Kyoto/Notebook/Aug_31}} | ||
+ | {{Kyoto/Notebook/Sep_1}} | ||
+ | {{Kyoto/Notebook/Sep_2}} | ||
+ | {{Kyoto/Notebook/Sep_3}} | ||
+ | {{Kyoto/Notebook/Sep_4}} | ||
+ | {{Kyoto/Notebook/Sep_5}} | ||
+ | {{Kyoto/Notebook/Sep_6}} | ||
+ | {{Kyoto/Notebook/Sep_7}} | ||
+ | {{Kyoto/Notebook/Sep_8}} | ||
+ | {{Kyoto/Notebook/Sep_9}} | ||
+ | {{Kyoto/Notebook/Sep_10}} | ||
+ | {{Kyoto/Notebook/Sep_11}} | ||
+ | {{Kyoto/Notebook/Sep_12}} | ||
+ | {{Kyoto/Notebook/Sep_13}} | ||
+ | {{Kyoto/Notebook/Sep_14}} | ||
+ | {{Kyoto/Notebook/Sep_15}} | ||
+ | {{Kyoto/Notebook/Sep_16}} | ||
+ | {{Kyoto/Notebook/Sep_17}} | ||
+ | {{Kyoto/Notebook/Sep_18}} | ||
+ | {{Kyoto/Notebook/Sep_19}} | ||
+ | {{Kyoto/Notebook/Sep_20}} | ||
+ | {{Kyoto/Notebook/Sep_21}} | ||
+ | {{Kyoto/Notebook/Sep_22}} | ||
+ | {{Kyoto/Notebook/Sep_23}} | ||
+ | {{Kyoto/Notebook/Sep_24}} | ||
+ | {{Kyoto/Notebook/Sep_25}} | ||
+ | {{Kyoto/Notebook/Sep_26}} | ||
+ | {{Kyoto/Notebook/Sep_27}} | ||
+ | {{Kyoto/Notebook/Sep_28}} | ||
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Latest revision as of 12:47, 10 October 2013
count down
Calender
August | ||||||
---|---|---|---|---|---|---|
1 | 2 | 3 | ||||
4 | 5 | 6 | 7 | 8 | 9 | 10 |
11 | 12 | 13 | 14 | 15 | 16 | 17 |
18 | 19 | 20 | 21 | 22 | 23 | 24 |
25 | 26 | 27 | 28 | 29 | 30 | 31 |
September | ||||||
---|---|---|---|---|---|---|
1 | 2 | 3 | 4 | 5 | 6 | 7 |
8 | 9 | 10 | 11 | 12 | 13 | 14 |
15 | 16 | 17 | 18 | 19 | 20 | 21 |
22 | 23 | 24 | 25 | 26 | 27 | 28 |
29 | 30 |
Aug 8
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
BBa_J44000 | 2 µL | 20 µL (7/30) | 22 µL | LB (+Amp) |
BBa_J44000 | 2 µL | 20 µL (XL10-gold) | 22 µL | LB (+Amp) |
BBa_K747028 | 2 µL | 20 µL (XL10-gold) | 22 µL | LB (+CP) |
BBa_K747028 | 2 µL | 20 µL (7/30) | 22 µL | LB (+CP) |
BBa_J23100 | 2 µL | 20 µL (XL10-gold) | 22 µL | LB (+Amp) |
BBa_J23106 | 2 µL | 20 µL (XL10-gold) | 22 µL | LB (+Amp) |
BBa_E2030 | 2 µL | 20 µL (XL10-gold) | 22 µL | LB (+Kan) |
Aug 9
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
BBa_J44000 | 2 µL | 20 µL | 22 µL | LB (+Amp) |
BBa_K747028 | 2 µL | 20 µL | 22 µL | LB (+CP) |
BBa_J23100 | 2 µL | 20 µL | 22 µL | LB (+Amp) |
BBa_J23106 | 2 µL | 20 µL | 22 µL | LB (+Amp) |
BBa_E2030 | 2 µL | 20 µL | 22 µL | LB (+Kan) |
Aug 10
Colony PCR
Sample |
---|
8/9 BBa_J44000 -(1) |
8/9 BBa_J44000 -(2) |
NC |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94 °C | 94 °C | 55 °C | 68 °C | -- |
5 min | 30 sec | 30 sec | 30 sec | 30 cycles |
Sample |
---|
8/9 BBa_J23106 |
8/9 BBa_J23100 -(1) |
8/9 BBa_J23100 -(2) |
NC |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94 °C | 94 °C | 55 °C | 68 °C | -- |
5 min | 30 sec | 30 sec | 1 min | 30 cycles |
Electrophoresis
Lane | Sample |
---|---|
100bp ladder | |
4 | 8/9 BBa_J44000 -1 |
5 | 8/9 BBa_J44000 -2 |
6 | NC |
Lane | Sample |
---|---|
1kbp ladder | |
1 | 8/9 BBa_J23106 |
2 | 8/9 BBa_J23100 -1 |
3 | 8/9 BBa_J23100 -2 |
4 | NC |
Liquid Culture
Sample | medium |
---|---|
8/9 BBa-J23106 | LB(+Amp) |
8/9 BBa-J23100-1 | LB(+Amp) |
8/9 BBa-J23100-2 | LB(+Amp) |
8/9 BBa-J44000-1 | LB(+Amp) |
8/9 BBa-J44000-2 | LB(+Amp) |
LB Medium Plate(+Ampicillin)
volume | 200ml |
---|---|
Bacto T2ypton | 2g |
Bacto yeast extract | 1g |
NaCl | 1g |
0.4M NaOHaq | 500µL |
Agarose Pouder | 2g |
Ampicillin | 40µL |
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
tetR | 3µL | 19µL | 22µL | Kan |
RBS | 3µL | 19µL | 22µL | Amp |
lacZα | 3µL | 19µL | 22µL | CP |
lacI | 3µL | 19µL | 22µL | CP |
Plac | 3µL | 19µL | 22µL | CP |
Aug 11
Miniprep
DNA | concentration[µg/mL] |
---|---|
8/9 BBa_J44000 -(2) | 100 |
8/9 BBa_J23106 | 154 |
8/9 BBa_J23100 | 144 |
8/10 T7-His-FT | 92 |
Colony PCR
Sample |
---|
BBa_B0034 -(2) |
BBa_B0034 -(1) |
BBa_R0011 -(2) |
BBa_R0011 -(1) |
NC |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94 °C | 94 °C | 55 °C | 68 °C | -- |
5 min | 30 s | 30 s | 20 s | 30 cycles |
Sample |
---|
BBa_D0412 -(1) |
BBa_D0412 -(2) |
NC |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94 °C | 94 °C | 55 °C | 68 °C | -- |
5 min | 30 s | 30 s | 1 min 30 s | 30 cycles |
Restriction Enzyme Digestion
8/9 BBa_J44000 2 | EcoRI | PstI | 10x buffer H | MilliQ | total |
---|---|---|---|---|---|
2 | 0.2 | 0.2 | 1 | 6.6 | 10 |
2 | 0.2 | -- | 1 | 6.8 | 10 |
2 | -- | 0.2 | 1 | 6.8 | 10 |
2 | -- | -- | 1 | 7.0 | 10 |
8/9 BBa_J23106 | EcoRI | PstI | 10x buffer H | MilliQ | total |
---|---|---|---|---|---|
1.3 | 0.2 | 0.2 | 1 | 7.3 | 10 |
1.3 | 0.2 | -- | 1 | 7.5 | 10 |
1.3 | -- | 0.2 | 1 | 7.5 | 10 |
1.3 | -- | -- | 1 | 7.7 | 10 |
8/9 BBa_J23100 2 | EcoRI | PstI | 10x buffer H | MilliQ | total |
---|---|---|---|---|---|
1.3 | 0.2 | 0.2 | 1 | 7.3 | 10 |
1.3 | 0.2 | -- | 1 | 7.5 | 10 |
1.3 | -- | 0.2 | 1 | 7.5 | 10 |
1.3 | -- | -- | 1 | 7.7 | 10 |
- incubated at 37 °C for 1 hour.
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | 8/9 BBa_J44000 | EcoRI | PstI |
3 | 8/9 BBa_J44000 | EcoRI | -- |
4 | 8/9 BBa_J44000 | -- | PstI |
5 | 8/9 BBa_J44000 | -- | -- |
6 | 8/9 BBa_J23106 | EcoRI | PstI |
7 | 8/9 BBa_J23106 | EcoRI | -- |
8 | 8/9 BBa_J23106 | -- | PstI |
9 | 8/9 BBa_J23106 | -- | -- |
10 | 8/9 BBa_J23100 | EcoRI | PstI |
11 | 8/9 BBa_J23100 | EcoRI | -- |
12 | 8/9 BBa_J23100 | -- | PstI |
13 | 8/9 BBa_J23100 | -- | -- |
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | BBa_B0034 (1) |
3 | BBa_B0034 (2) |
4 | BBa_R0011 (1) |
5 | BBa_R0011 (2) |
6 | NC |
7 | 100bp ladder |
Lane | Sample |
---|---|
1 | 1kb ladder |
2 | BBa_P0412 (1) |
3 | BBa_P0412 (2) |
4 | NC |
Aug 15
Liquid Culture
Sample | medium |
---|---|
8/10 BBa_B0034(1) | LB (+Amp) |
8/10 BBa_B0034(2) | LB (+Amp) |
8/10 BBa_R0011(1) | LB (+CP) |
8/10 BBa_R0011(2) | LB (+CP) |
8/10 BBa_P0412(1) | LB (+CP) |
8/10 BBa_P0412(2) | LB (+CP) |
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
BBa_I0500(Pbad/araC) | 2 | 17 | 19 | LB (+Kan) |
BBa_F1610(RBS-luxI-DT) | 2 | 17 | 19 | LB (+Amp) |
BBa_R0061(Plux) | 2 | 17 | 19 | LB (+CP) |
BBa_I13504(RBS-GFP-DT) | 2 | 17 | 19 | LB (+CP) |
BBa_I0462(RBS-luxR-DT) | 2 | 17 | 19 | LB (+Amp) |
BBa_K117000(lysis1) | 2 | 17 | 19 | LB (+CP) |
BBa_K112806(lysis2) | 2 | 17 | 19 | LB (+CP) |
BBa_K748002(lysis3) | 2 | 17 | 19 | LB (+CP) |
BBa_B0015(DT) | 2 | 17 | 19 | LB (+CP) |
BBa_Q04400(RBS-tetR-DT-Ptet) | 2 | 17 | 19 | LB (+Kan) |
BBa_I732020(RBS-lacZα-DT) | 2 | 17 | 19 | LB (+CP) |
BBa_J23100 | 2 | 17 | 19 | LB (+Amp) |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
BBa_B0034(1) | 84.1 | 2.11 | 2.01 |
BBa_B0034(2) | 86.9 | 2.03 | 2.02 |
BBa_R0011(1) | 78.3 | 2.26 | 2.02 |
BBa_R0011(2) | 88.9 | 2.24 | 2.02 |
BBa_P0412(1) | 15.61 | 2.10 | 1.93 |
BBa_P0412(2) | 12.93 | 2.18 | 1.91 |
Aug 16
Colony PCR
Sample | base pair |
---|---|
8/15 BBa_I13504(RBS-GFP-DT)(1) | 1174 |
8/15 BBa_I13504(RBS-GFP-DT)(2) | 1174 |
8/15 BBa_I0462(RBS-luxR-DT)(1) | 1174 |
8/15 BBa_I0462(RBS-luxR-DT)(2) | 1174 |
8/15 BBa_K748002(lysis3) | 1053 |
NC | -- |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 1min | 30cycles |
Sample | base pair |
---|---|
8/15 BBa_R0061(Plux) | 344 |
8/15 BBa_K117000(lysis1)(1) | 456 |
8/15 BBa_K117000(lysis1)(2) | 456 |
8/15 BBa_B0015(DT) | 443 |
8/15 BBa_I732020(RBS-lacZα-DT) | 703 |
NC | -- |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 40s | 30cycles |
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | BBa_I13504(RBS-GFP-DT) -(1) |
3 | BBa_I13504(RBS-GFP-DT) -(2) |
4 | BBa_I0462(RBS-luxR-DT) -(1) |
5 | BBa_I0462(RBS-luxR-DT) -(2) |
6 | BBa_K748002(lysis3) |
7 | NC |
8 | 100bp ladder |
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | BBa_R0061(Plux) |
3 | BBa_K117000(lysis1) -(1) |
4 | BBa_K117000(lysis1) -(1) |
5 | BBa_B0015(DT) |
6 | BBa_I732020(RBS-lacZα-DT) |
7 | NC |
8 | 100bp ladder |
Master Plate
Number | Use LB plate (+CP) |
---|---|
1 | BBa_I13504(RBS-GFP-DT)(1) |
2 | BBa_I13504(RBS-GFP-DT)(2) |
3 | BBa_K748002(lysis3) |
4 | BBa_R0061(Plux) |
5 | BBa_K117000(lysis1)(1) |
6 | BBa_K117000(lysis1)(2) |
7 | BBa_B0015(DT) |
8 | BBa_I732020(RBS-lacZα-DT) |
Number | Use LB plate (+Amp) |
---|---|
1 | BBa_I0462(RBS-luxR-DT)(1) |
2 | BBa_I0462(RBS-luxR-DT)(2) |
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
pBR322 | 1µL | 100µL(XL-10gold) | 101µL | Amp |
pBR322 | 1µL | 50µL(takara) | 51µL | Amp |
Pbad/araC | 2µL | 20µL | 22µL | Kan |
RBS-luxI-DT | 2µL | 20µL | 22µL | Kan |
Liquid Culture
Sample | medium |
---|---|
8/15 BBa_I13504(RBS-GFP-DT))(1) | Plusgrow medium (+CP) |
8/15 BBa_I13504(RBS-GFP-DT)(2) | Plusgrow medium (+CP) |
8/15 BBa_I0462(RBS-luxR-DT)(2) | Plusgrow medium (+Amp) |
8/15 BBa_K748002(lysis3) | Plusgrow medium (+CP) |
8/15 BBa_R0061(Plux) | Plusgrow medium (+CP) |
8/15 BBa_K117000(lysis1)(1) | Plusgrow medium (+CP) |
8/15 BBa_K117000(lysis1)(2) | Plusgrow medium (+CP) |
8/15 BBa_B0015(DT) | Plusgrow medium (+CP) |
8/15 BBa_I732020(RBS-lacZα-DT) | Plusgrow medium (+CP) |
Aug 17
Colony PCR
Sample | base pair |
---|---|
8/15 BBa_K112806(lysis2) -(1) | 828 |
NC | -- |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 1min | 30cycles |
Sample | base pair |
---|---|
8/10 BBa_Q0400 -(1) | 3995 |
NC | -- |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 30s | 30cycles |
Electrophoresis
Liquid Culture
Sample | medium |
---|---|
8/15 BBa_K112806(lysis2) -(1) | Plusgrow medium(+CP) |
8/15 BBa_Q04400(tetR) -(1) | Plusgrow medium(+Amp) |
8/16 pBR322 -(1) | Plusgrow medium(+Amp) |
Master Plate
Number | Use LB plate (+CP) |
---|---|
1 | BBa_K112806(lysis2) -(1) |
Number | Use LB plate (+Kana) |
---|---|
1 | BBa_Q04400(tetR) -(1) |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
K748002(lysis3) -(1) | 330 | 1.66 | 2.08 |
B0015(DT) -(1) | 188 | 1.73 | 1.82 |
R0061(Plux) -(1) | 76 | 1.64 | 1.30 |
K117000(lysis1) -(1) | 286 | 1.71 | 2.01 |
K117000(lysis1) -(2) | 248 | 1.69 | 1.78 |
I732020(RBS-lacZα-DT) -(1) | 198 | 1.71 | 1.93 |
I13504(RBS-GFP-DT) -(1) | 248 | 1.69 | 2.03 |
I13504(RBS-GFP-DT) -(2) | 246 | 1.55 | 1.73 |
I0462(RBS-luxR-DT) -(1) | 326 | 1.65 | 1.74 |
Restriction Enzyme Digestion
8/11 J23100 -(2) | SpeI | PstI | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|
2 cuts | 4.0µL | 1.0µL | 1.0µL | 3.0µL | 21µL | 30µL |
1 cut | 1.3µL | 0.2µL | -- | 1.0µL | 7.5µL | 10µL |
1 cut | 1.3µL | -- | 0.2µL | 1.0µL | 7.5µL | 10µL |
NC | 1.3µL | -- | -- | 1.0µL | 7.7µL | 10µL |
8/15 B0034(RBS) -(2) | SpeI | PstI | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|
2 cuts | 6.0µL | 1.0µL | 1.0µL | 3.0µL | 19µL | 30µL |
1 cut | 2.0µL | 0.2µL | -- | 1.0µL | 6.8µL | 10µL |
1 cut | 2.0µL | -- | 0.2µL | 1.0µL | 6.8µL | 10µL |
NC | 2.0µL | -- | -- | 1.0µL | 7.0µL | 10µL |
8/17 K117000(lysis1) -(1) | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2.0µL | 1.0µL | 1.0µL | 3.0µL | 3.0µL | 20µL | 30µL |
1 cut | 1.0µL | 0.2µL | -- | 1.0µL | 1.0µL | 6.8µL | 10µL |
1 cut | 1.0µL | -- | 0.2µL | 1.0µL | 1.0µL | 6.8µL | 10µL |
NC | 1.0µL | -- | -- | 1.0µL | 1.0µL | 7.0µL | 10µL |
8/17 K748002(lysis3) -(1) | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2.0µL | 1.0µL | 1.0µL | 3.0µL | 3.0µL | 20µL | 30µL |
1 cut | 1.0µL | 0.2µL | -- | 1.0µL | 1.0µL | 6.8µL | 10µL |
1 cut | 1.0µL | -- | 0.2µL | 1.0µL | 1.0µL | 6.8µL | 10µL |
NC | 1.0µL | -- | -- | 1.0µL | 1.0µL | 7.0µL | 10µL |
8/17 I13504(RBS-GFP-DT) -(1) | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2.0µL | 1.0µL | 1.0µL | 3.0µL | 3.0µL | 20µL | 30µL |
1 cut | 1.0µL | 0.2µL | -- | 1.0µL | 1.0µL | 6.8µL | 10µL |
1 cut | 1.0µL | -- | 0.2µL | 1.0µL | 1.0µL | 6.8µL | 10µL |
NC | 1.0µL | -- | -- | 1.0µL | 1.0µL | 7.0µL | 10µL |
8/17 I0462(RBS-luxR-DT) -(1) | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2.0µL | 1.0µL | 1.0µL | 3.0µL | 3.0µL | 20µL | 30µL |
1 cut | 1.0µL | 0.2µL | -- | 1.0µL | 1.0µL | 6.8µL | 10µL |
1 cut | 1.0µL | -- | 0.2µL | 1.0µL | 1.0µL | 6.8µL | 10µL |
NC | 1.0µL | -- | -- | 1.0µL | 1.0µL | 7.0µL | 10µL |
8/17 I732020(RBS-lacZα-DT) -(1) | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2.0µL | 1.0µL | 1.0µL | 3.0µL | 3.0µL | 20µL | 30µL |
1 cut | 1.0µL | 0.2µL | -- | 1.0µL | 1.0µL | 6.8µL | 10µL |
1 cut | 1.0µL | -- | 0.2µL | 1.0µL | 1.0µL | 6.8µL | 10µL |
NC | 1.0µL | -- | -- | 1.0µL | 1.0µL | 7.0µL | 10µL |
8/11 R6061 -(1) | SpeI | PstI | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|
2 cuts | 8.0µL | 1.0µL | 1.0µL | 3.0µL | 17µL | 30µL |
1 cut | 3.0µL | 0.2µL | -- | 1.0µL | 5.8µL | 10µL |
1 cut | 3.0µL | -- | 0.2µL | 1.0µL | 5.8µL | 10µL |
NC | 3.0µL | -- | -- | 1.0µL | 6.0µL | 10µL |
- incubate at 37 °C, for 1 h
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | J23100 -② | SpeI | PstI |
2 | J23100 -② | SpeI | -- |
3 | J23100 -② | -- | PstI |
4 | J23100 -② | -- | -- |
5 | B0034(RBS) -(2) | SpeI | PstI |
6 | B0034(RBS) -(2) | SpeI | -- |
7 | B0034(RBS) -(2) | -- | PstI |
8 | B0034(RBS) -(2) | -- | -- |
9 | 1kb ladder | -- | -- |
10 | K11700(lysis1) -(1) | XbaI | PstI |
11 | K11700(lysis1) -(1) | XbaI | -- |
12 | K11700(lysis1) -(1) | -- | PstI |
13 | K11700(lysis1) -(1) | -- | -- |
14 | K748002(lysis3) -(1) | XbaI | PstI |
15 | K748002(lysis3) -(1) | XbaI | -- |
16 | K748002(lysis3) -(1) | -- | PstI |
17 | K748002(lysis3) -(1) | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
18 | I13504(RBS-GFP-DT) -(1) | XbaI | PstI |
19 | I13504(RBS-GFP-DT) -(1) | XbaI | -- |
20 | I13504(RBS-GFP-DT) -(1) | -- | PstI |
21 | I13504(RBS-GFP-DT) -(1) | -- | -- |
22 | I0462(RBS-luxR-DT) -(1) | XbaI | PstI |
23 | I0462(RBS-luxR-DT) -(1) | XbaI | -- |
24 | I0462(RBS-luxR-DT) -(1) | -- | PstI |
25 | I0462(RBS-luxR-DT) -(1) | -- | -- |
26 | 1kb ladder | -- | -- |
27 | I732020(RBS-lacZα-DT) -(1) | XbaI | PstI |
28 | I732020(RBS-lacZα-DT) -(1) | XbaI | -- |
29 | I732020(RBS-lacZα-DT) -(1) | -- | PstI |
30 | I732020(RBS-lacZα-DT) -(1) | -- | -- |
31 | R0061(Plux) -(1) | SpeI | PstI |
32 | R0061(Plux) -(1) | SpeI | -- |
33 | R0061(Plux) -(1) | -- | PstI |
34 | R0061(Plux) -(1) | -- | -- |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
8/17 PBR322(TaKaRa) -(1) | 47 | 1.68 | 1.55 |
8/17 K112806(lysis2) -(1) | 64 | 1.67 | 1.70 |
Aug 18
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100kb ladder | -- |
2 | 8/11 J23100 -② | -- |
3 | 8/11 J23100 -② | -- |
4 | -- | -- |
5 | 8/17 K117000(lysis1) -1 | -- |
6 | 8/17 K117000(lysis1) -1 | -- |
7 | -- | -- |
8 | 8/17 K748002(lysis3) -1 | -- |
9 | 8/17 K748002(lysis3) -1 | -- |
10 | -- | -- |
11 | 8/17 I13504(RBS-GFP-DT) -1 | -- |
12 | 8/17 I13504(RBS-GFP-DT) -1 | -- |
Lane | DNA | Enzyme |
---|---|---|
13 | 1kb ladder | -- |
14 | 8/17 I0462(RBS-luxR-DT) -1 | -- |
15 | 8/17 I0462(RBS-luxR-DT) -1 | -- |
16 | -- | -- |
17 | 8/17 I732020(RBS-lacZα-DT) -1 | -- |
18 | 8/17 I732020(RBS-lacZα-DT) -1 | -- |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
8/14 J231000 | 1.7 | 1.61 | 0.04 |
8/17 K748002(lysis3) -1 | 5.4 | 2.39 | 0.45 |
8/17 I13504(RBS-GFP-DT) -1 | 3.4 | 3.33 | 0.19 |
8/17 I0462(RBS-luxR-DT) -1 | 4.4 | 2.07 | 0.37 |
8/17 I732020(RBS-lacZα-DT) -1 | 2.9 | 2.17 | 0.29 |
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | J23100 | 9.0 | RBS-lacZα-DT | 8.6 | 3.5 |
experiment | J23100 | 9.0 | RBS-GFP-DT | 7.3 | 3.5 |
experiment | RBS | 1 | lysis3 | 4.6 | 2.8 |
experiment | Plux | 1 | GFP | 7.3 | 3.5 |
experiment | J23100 | 9.0 | -- | -- | 3.5 |
experiment | RBS | 1.0 | -- | -- | 0.5 |
experiment | Plux | 1.0 | -- | -- | 0.5 |
incubate 16°C 1hour
Restriction Enzyme Digestion
8/17K112806(lysis2)-1 | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2.0µL | 1.0µL | 1.0µL | 3.0µL | 3.0µL | 3.0µL | 30 µL |
1 cuts | 1.0&mic6/8ro;L | 0.2µL | -- | 1.0µL | 1.0µL | 6.8µL | 10 µL |
1 cuts | 1.0µL | -- | 0.2µL | 1.0µL | 1.0µL | 6.8µL | 10 µL |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | lysis1 | XbaI | PstI |
3 | lysis1 | XbaI | -- |
4 | lysis1 | -- | PstI |
5 | lysis1 | -- | -- |
6 | lysis2 | XbaI | PstI |
7 | lysis2 | XbaI | -- |
8 | lysis2 | -- | PstI |
9 | lysis2 | -- | -- |
10 | 100bp ladder | -- | -- |
Colony PCR
Sample | base pair |
---|---|
8/8 LBKana | -- |
8/16 Pbad araC | -- |
NC | -- |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 1min | 30 |
Liquid Culture
Sample | medium |
---|---|
7/8 LB Kana | Plusgrow(+Kana) |
8/16 Pbad araC | Plusgrow(+Kana) |
LB Medium Plate
volume | 200ml |
---|---|
Bacto Trypton | 2g |
Bacto yeasy extract | 1g |
NaCl | 1g |
Agar Powder | 2g |
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
8/18 J23100+RBS-LacZα-DT | 2µL | 20µL | 22µL | Amp |
8/18 J23100+RBS-GFP-DT | 2µL | 20µL | 22µL | Amp |
8/18 J23100+RBS-luxR-DT | 2µL | 20µL | 22µL | Amp |
RBS+lysis3 | 2µL | 20µL | 22µL | Amp |
Plux+GFP | 2µL | 20µL | 22µL | CP |
J23100 | 2µL | 20µL | 22µL | Amp |
RBS | 2µL | 20µL | 22µL | Amp |
Plux | 2µL | 20µL | 22µL | CP |
Electrophoresis
Aug 19
Colony PCR
Sample | base pair |
---|---|
8/18 J23100 control -(1) | 1142 |
8/18 J23100-RBS-GFP-DT -(1) | 1156 |
8/18 J23100-RBS-GFP-DT -(2) | 1156 |
8/18 J23100-RBS-luxR-DT -(1) | 1271 |
8/18 J23100-RBS-luxR-DT -(2) | 1271 |
8/18 J23100-RBS-lacZα-DT -(1) | 670 |
8/18 J23100-RBS-lacZα-DT -(2) | 670 |
8/18 RBS-lysis3 -(1) | 997 |
8/18 RBS-lysis3 -(2) | 997 |
8/18 P0440(RBS-tetR-DT) -(1) | 1154 |
8/18 P0440(RBS-tetR-DT) -(2) | 1154 |
negative control | -- |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 1min | 30cycles |
Lane | DNA |
---|---|
1 | 100bp ladder |
2 | 8/18 NC J23100(1) |
3 | 8/18 J23100-RBS-GFP-DT-(1) |
4 | 8/18 J23100-RBS-GFP-DT-(2) |
5 | 8/18 J23100-RBS-luxR-DT-(1) |
6 | 8/18 J23100-RBS-luxR-DT-(2) |
7 | 8/18 J23100-RBS-lacZα-DT-(1) |
8 | 8/18 J23100-RBS-lacZα-DT-(2) |
9 | 8/18 RBS-lysis3-(1) |
10 | 8/18 RBS-lysis3-(2) |
11 | 8/18 R0400(RBS-tetR-DT)-(1) |
12 | 8/18 R0400(RBS-tetR-DT)-(2) |
13 | NC |
14 | 100bp ladder |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
8/19 lysis1 ① (XbaI & PstI) | 87.8 | 1.06 | 0.82 |
Sample | base pair |
---|---|
8/18 RBS control -(1) | -- |
8/18 R0040(Ptet) -(1) | 686 |
8/18 R0040(Ptet) -(2) | 686 |
negative control | -- |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 30s | 30cycles |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
3 | 8/18 K117000(lysis2) -1 | XbaI & PstI |
5 | 8/18 K117000(lysis2) -1 | XbaI & PstI |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
8/18 lysis2-1(XbaI & PstI) | 3.1 | 3.64 | 0.19 |
8/18 lysis2-1(XbaI & PstI) | 3.4 | 1.89 | 0.13 |
LB Medium Plate
volume | 200ml |
---|---|
Bacto T2ypton | 2g |
Bacto yeast extract | 1g |
NaCl | 1g |
Agar Pouder | 2g |
Restriction Enzyme Digestion
lysis2-1 | XbaI | PstI | 10xbuffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 10µL | 1µL | 1µL | 3µL | 3µL | 12µL | 30µL |
1 cut | 2µL | 0.2µL | -- | 1µL | 1µL | 5.8µL | 10µL |
1 cut | 2µL | -- | 0.2µL | 1µL | 1µL | 5.8µL | 10µL |
NC | 2µL | -- | -- | 1µL | 1µ | 6µL | 10µL |
- at 37°C, for 1h
8/19 lysis1-1 | XbaI | PstI | 10xbuffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2µL | 0.5µL | 0.8µL | 2µL | 2µL | 13µL | 20µL |
1 cut | 0.5µL | 0.2µL | -- | 1µL | 1µL | 7.3µL | 10µL |
1 cut | 0.5µL | -- | 0.2µL | 1µL | 1µL | 7.3µL | 10µL |
NC | 0.5µL | -- | -- | 1µL | 1µL | 7.5µL | 10µL |
- at 37°C, for 1h
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | RBS | 0.3 | lysis2 | 7.4 | 4 |
NC | RBS | 0.3 | MilliQ | 7.4 | 4 |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | 8/19 lysis1 | XbaI | PstI |
3 | 8/19 lysis1 | XbaI | -- |
4 | 8/19 lysis1 | -- | PstI |
5 | 8/19 lysis1 | -- | -- |
6 | 8/19 lysis1(Gel Extraction Product) | XbaI | PstI |
Transformation
Name | Sample | Competent Cells | Plate |
---|---|---|---|
8/18 Plux+RBS-GFP-DT | 2µL | 20µL | CP |
8/18 Plux(NC) | 2µL | 20µL | CP |
8/19 RBS+lysis2 | 2µL | 20µL | Amp |
8/15 Pbad-araC | 2µL | 20µL | Kan |
- Incubate at 37°C
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | 8/19 lysis1 ① | XbaI & PstI |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
8/19 lysis1 ① (XbaI & PstI) | 87.8 | 1.06 | 0.82 |
Liquid Culture
Sample | medium |
---|---|
8/18 Ptet -1 | Plusgrow medium(+CP) |
8/18 Ptet -2 | Plusgrow medium(+CP) |
8/18 RBS-tetR-DT -1 | Plusgrow medium(+CP) |
8/18 RBS-tetR-DT -2 | Plusgrow medium(+CP) |
8/18 J23100-GFP -1 | Plusgrow medium(+Amp) |
8/18 J23100-luxR -1 | Plusgrow medium(+Amp) |
8/18 J23100-luxR -2 | Plusgrow medium(+Amp) |
8/18 J23100-lacZα -1 | Plusgrow medium(+Amp) |
8/18 RBS-lysis3 -1 | Plusgrow medium(+Amp) |
8/18 RBS-lysis3 -2 | Plusgrow medium(+Amp) |
Master Plate
Number | Use LB plate(+Amp) |
---|---|
1 | 8/18 J23100-GFP -1 |
2 | 8/18 J23100-luxR -1 |
3 | 8/18 J23100-luxR -2 |
4 | 8/18 J23100-lacZα -1 |
5 | 8/18 RBS-lysis3 -1 |
6 | 8/18 RBS-lysis3 -2 |
Number | Use LB plate(+CP) |
---|---|
1 | 8/18 Ptet -1 |
1 | 8/18 Ptet -2 |
3 | 8/18 RBS-tetR-DT -1 |
4 | 8/18 RBS-tetR-DT -2 |
Aug 20
Miniprep
DNA | concentration[µg/µL] | 260/280 | 260/230 |
---|---|---|---|
8/18 Ptet -1 | 220 | 1.69 | 1.87 |
8/18 Ptet -2 | 210 | 1.69 | 1.71 |
8/18 RBS-tetR-DT -1 | 236 | 1.63 | 1.69 |
8/18 RBS-tetR-DT -2 | 182 | 1.65 | 1.98 |
8/18 J23100-RBS-GFP-DT -1 | 334 | 1.71 | 2.12 |
8/18 J23100-RBS-luxR-DT -1 | 440 | 1.67 | 1.60 |
8/18 J23100-RBS-luxR-DT -2 | 344 | 1.68 | 1.83 |
8/18 J23100-RBS-lacZα-DT -1 | 280 | 1.70 | 1.81 |
8/18 RBS-lysis3 -1 | 282 | 1.67 | 1.76 |
8/18 RBS-lysis3 -2 | 212 | 1.30 | 1.35 |
LB Medium Plate
volume | 200mL |
---|---|
Bacto Trypton | 2g |
Bacto yeast extract | 1g |
Nacl | 1g |
Agar Powder | 2g |
Amp | 40µl |
1. Measuring reagents and put they in the Erlenmeyer flask.
2. diluting in measuring cylinder to 200ml total.
3. autoclaving.
4. adding ampicirine 40ml.
Ristriction Enzyme Digestion
8/20 Ptet -1(220µg/mL) | EcoRI | XbaI | 10x BSA | 10x buffer M | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 4.5 | 1 | 1 | 3 | 3 | 17.5 | 30 |
1 cut | 0.5 | 0.2 | 0 | 1 | 1 | 7.3 | 10 |
1 cut | 0.5 | 0 | 0.2 | 1 | 1 | 7.3 | 10 |
NC | 0.5 | 0 | 0 | 1 | 1 | 7.5 | 10 |
8/20 RBS-tetR-DT -2(182µg/mL) | EcoRI | SpeI | 10x buffer H | MilliQ | total | |
---|---|---|---|---|---|---|
2 cuts | 5.5 | 1 | 1 | 3 | 19.5 | 30 |
1 cut | 0.6 | 0.2 | 0 | 1 | 8.2 | 10 |
1 cut | 0.6 | 0 | 0.2 | 1 | 8.2 | 10 |
NC | 0.6 | 0 | 0 | 1 | 8.4 | 10 |
8/20 J23100-RBS-GFP-DT(334µg/ml) | EcoRI | SpeI | 10x buffer H | MilliQ | total | |
---|---|---|---|---|---|---|
2 cuts | 3.0 | 1 | 1 | 3 | 22 | 30 |
1 cut | 0.3 | 0.2 | 0 | 1 | 8.5 | 10 |
1 cut | 0.3 | 0 | 0.2 | 1 | 8.5 | 10 |
NC | 0.3 | 0 | 0 | 1 | 8.7 | 10 |
8/20 J23100-RBS-luxR-DT -2(344µg/mL) | EcoRI | XbaI | BSA | 10x buffer M | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2.9 | 1 | 1 | 3 | 3 | 19.1 | 30 |
1 cut | 0.3 | 0.2 | 0 | 1 | 1 | 7.5 | 10 |
1 cut | 0.3 | 0 | 0.2 | 1 | 1 | 7.5 | 10 |
NC | 0.3 | 0 | 0 | 1 | 1 | 7.7 | 10 |
8/20 RBS-lysis3 -1(282µg/mL) | EcoRI | SpeI | 10x buffer H | MilliQ | total | |
---|---|---|---|---|---|---|
2 cuts | 3.5 | 1 | 1 | 3 | 21.5 | 30 |
1 cut | 0.4 | 0.2 | 0 | 1 | 8.4 | 10 |
1 cut | 0.4 | 0 | 0.2 | 1 | 8.4 | 10 |
NC | 0.4 | 0 | 0 | 1 | 8.6 | 10 |
8/17 DT -1(188µg/mL) | EcoRI | XbaI | 10x BSA | 10x buffer M | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 5.3 | 1 | 1 | 3 | 3 | 16.7 | 30 |
1 cut | 0.3 | 0.2 | 0 | 1 | 1 | 7.5 | 10 |
1 cut | 0.3 | 0 | 0.2 | 1 | 1 | 7.5 | 10 |
NC | 0.3 | 0 | 0 | 1 | 1 | 7.7 | 10 |
Transformation
Name | Sample | Competent Cells(XL10-gold) | Total | Plate |
---|---|---|---|---|
tRNA-Spinach-tRNA | 1µL | 10µL | 11µL | Amp |
tetR-aptamer 12_PC(076) | 1µL | 10µL | 11µL | Amp |
tetR-aptamer 12_1R(113) | 1µL | 10µL | 11µL | Amp |
tetR-aptamer 12_1M(105) | 1µL | 10µL | 11µL | Amp |
pT181 attenuator | 1µL | 10µL | 11µL | Amp |
Fusin1 attenuator | 1µL | 10µL | 11µL | Amp |
Fusion3m2 attenuator | 1µL | 10µL | 11µL | Amp |
pT181 antisense | 1µL | 10µL | 11µL | Amp |
Fusion1 antisense | 1µL | 10µL | 11µL | Amp |
Fusion6 antisense | 1µL | 10µL | 11µL | Amp |
incubate 37°C overnight 20:34~
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 8/20 Ptet -1 | EcoRI | XbaI |
2 | 8/20 Ptet -1 | EcoRI | -- |
3 | 8/20 Ptet -1 | -- | XbaI |
4 | 8/20 Ptet -1 | -- | -- |
5 | 8/20 RBS-tetR-DT -2 | EcoRI | SpeI |
6 | 8/20 RBS-tetR-DT -2 | EcoRI | -- |
7 | 8/20 RBS-tetR-DT -2 | -- | SpeI |
8 | 8/20 RBS-tetR-DT -2 | -- | -- |
9 | 1kbp ladder | -- | -- |
10 | 8/20 J23100-RBS-GFP-DT -1 | EcoRI | SpeI |
11 | 8/20 J23100-RBS-GFP-DT -1 | EcoRI | -- |
12 | 8/20 J23100-RBS-GFP-DT -1 | -- | SpeI |
13 | 8/20 J23100-RBS-GFP-DT -1 | -- | -- |
14 | 8/20 J23100-RBS-luxR-DT -1 | EcoRI | XbaI |
15 | 8/20 J23100-RBS-luxR-DT -1 | EcoRI | -- |
16 | 8/20 J23100-RBS-luxR-DT -1 | -- | XbaI |
17 | 8/20 J23100-RBS-luxR-DT -1 | -- | -- |
18 | 1kbp ladder | -- | -- |
19 | 8/20 RBS-lysis3 -1 | EcoRI | SpeI |
20 | 8/20 RBS-lysis3 -1 | EcoRI | -- |
21 | 8/20 RBS-lysis3 -1 | -- | SpeI |
22 | 8/20 RBS-lysis3 -1 | -- | -- |
23 | 1kbp ladder | -- | -- |
24 | 8/17 DT | EcoRI | XbaI |
25 | 8/17 DT | EcoRI | -- |
26 | 8/17 DT | -- | XbaI |
27 | 8/17 DT | -- | -- |
Aug 21
Plusgrow Medium
- material
- 8/17 Plusgrow medium 50ml
- 7/22 5000x Ampicillin 10µl
- Measuring materials and putting them in a 50ml tube
Liquid culture
Sample | medium |
---|---|
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
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | -- |
2 | 8/20 Ptet -(1) | EcoRI & XbaI |
3 | ||
5 | 8/20 RBS-tetR-DT -(2) | EcoRI & SpeI |
6 | ||
8 | 8/20 Pconst-RBS-GFP-DT -(1) | EcoRI & SpeI |
9 | ||
11 | 8/20 RBS-lysis3 -(1) | EcoRI & SpeI |
12 |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Ptet (EcoRI & XbaI) | 21 | 1.55 | 0.78 |
RBS-tetR-DT (EcoRI & SpeI) | 12 | 1.45 | 0.62 |
Pconst-RBS-GFP-DT (EcoRI & SpeI) | 11 | 1.36 | 0.60 |
RBS-lysis3 (EcoRI & SpeI) | 10 | 1.26 | 0.50 |
Ristriction Enzyme Digestion
8/20 Ptet-(1) | EcoRI | XbaI | 10x BSA | 10x buffer M | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 4.5 | 1 | 1 | 3 | 3 | 17.5 | 30 |
1 cut | 0.5 | 0.2 | 0 | 1 | 1 | 7.3 | 10 |
1 cut | 0.5 | 0 | 0.2 | 1 | 1 | 7.3 | 10 |
NC | 0.5 | 0 | 0 | 1 | 1 | 7.5 | 10 |
8/20 Pconst-RBS-luxR-DT-(2) | EcoRI | XbaI | 10x BSA | 10x buffer M | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2.9 | 1 | 1 | 3 | 3 | 19.1 | 30 |
1 cut | 0.3 | 0.2 | 0 | 1 | 1 | 7.5 | 10 |
1 cut | 0.3 | 0 | 0.2 | 1 | 1 | 7.5 | 10 |
NC | 0.3 | 0 | 0 | 1 | 1 | 7.7 | 10 |
8/17 DT | EcoRI | XbaI | 10x BSA | 10x buffer M | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 5.3 | 1 | 1 | 3 | 3 | 16.7 | 30 |
1 cut | 0.5 | 0.2 | 0 | 1 | 1 | 7.3 | 10 |
1 cut | 0.5 | 0 | 0.2 | 1 | 1 | 7.3 | 10 |
NC | 0.5 | 0 | 0 | 1 | 1 | 7.5 | 10 |
- incubate at 37°C for 1h
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 1kbp ladder | -- | -- |
2 | 8/20 Ptet -(1) | EcoRI | XbaI |
3 | 8/20 Ptet -(1) | EcoRI | -- |
4 | 8/20 Ptet -(1) | -- | XbaI |
5 | 8/20 Ptet -(1) | -- | -- |
6 | 8/20 J23100-RBS-luxR-DT -(2) | EcoRI | XbaI |
7 | 8/20 J23100-RBS-luxR-DT -(2) | EcoRI | -- |
8 | 8/20 J23100-RBS-luxR-DT -(2) | -- | XbaI |
9 | 8/20 J23100-RBS-luxR-DT -(2) | -- | -- |
10 | 8/20 DT | EcoRI | XbaI |
11 | 8/20 DT | EcoRI | -- |
12 | 8/20 DT | -- | XbaI |
13 | 8/20 DT | -- | -- |
14 | 1kbp ladder | -- | -- |
15 | 8/20 Ptet -(1) | EcoRI | XbaI |
- The reason why lane 2 and 15 were same is that the well of lane 2 might be broken.
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 1kbp ladder | -- | -- |
2 | 8/20 J23100-RBS-luxR-DT -(2) | EcoRI | XbaI |
3 | 8/20 DT | EcoRI | XbaI |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kb ladder | -- |
2 | 8/21 J23100-RBS-luxR-DT 25µL | EcoRI+XbaI |
3 | 8/21 J23100-RBS-luxR-DT 25µL | EcoRI+XbaI |
4 | -- | -- |
5 | 8/21 Ptet 25µL | EcoRI+XbaI |
6 | 8/21 Ptet 25µL | EcoRI+XbaI |
Electrophoresis
Ligation
state | Vector | Inserter | Ligation High ver.2 | total | ||
---|---|---|---|---|---|---|
experiment | 8/21 Pcn-RBS-luxR-DT(+Amp) | 2.3 | 8/21 Pcn-RBS-GFP-DT | 1.7 | 2 | 6 |
NC | 8/21 Pcn-RBS-luxR-DT(+Amp) | 2.3 | MilliQ | 1.7 | 2 | 6 |
experiment | 8/18 Plux(+CP) | 1.1 | 8/19 RBS-GFP-DT | 5 | 3.1 | 9.2 |
NC | 8/18 Plux(+CP) | 1.1 | MilliQ | 5 | 3.1 | 9.2 |
experiment | 8/18 RBS(+Amp) | 2.2 | 8/19 lysis1 | 6.0 | 4.1 | 12.3 |
experiment | 8/18 RBS(+Amp) | 2.2 | 8/19 lysis2 | 3.6 | 2.9 | 8.7 |
NC | 8/18 RBS(+Amp) | 2.2 | MilliQ | 3.6 | 2.9 | 8.7 |
experiment | 8/21 Ptet | 1.5 | 8/20 RBS-tetR-DT (2) | 2.1 | 1.8 | 5.4 |
NC | 8/21 Ptet | 1.5 | MilliQ | 2.1 | 1.8 | 5.4 |
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
8/21 Pcon-RBS-GFP-DT+Pcon-RBS-GFP-DT | 1µL | 10µL | 11µL | Amp |
8/21 Pcon-RBS-GFP-DT NC | 1µL | 10µL | 11µL | Amp |
8/18 RBS+8/19 lysis1 | 1µL | 10µL | 11µL | Amp |
8/18 RBS+8/19 lysis2 | 1µL | 10µL | 11µL | Amp |
8/18 RBS NC | 1µL | 10µL | 11µL | Amp |
8/18 Plux+8/18 RBS-GFP-DT | 1µL | 10µL | 11µL | CP |
8/18 Plux+8/18 RBS-GFP-DT | 1µL | 10µL | 11µL | CP |
8/21 Ptet(pm)+8/20 RBS-tetR-DT(2) | 1µL | 10µL | 11µL | CP |
8/21 Ptet(pm)+8/20 RBS-tetR-DT(2) NC | 1µL | 10µL | 11µL | CP |
8/21 pSB1C3 | 1µL | 10µL | 11µL | CP |
LB Medium Plate
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kb ladder | -- |
2 | -- | -- |
3 | 8/21 DT | EcoRI & XbaI |
4 |
Miniprep
DNA | concentration [µg/mL] | 260/280 | 260/230 |
---|---|---|---|
tRNA-spinach-(1) | 234 | 1.64 | 2.14 |
tRNA-spinach-(2) | 440 | 1.60 | 1.91 |
tetR-aptamer 12-p(1076)-(1) | 150 | 1.61 | 2.03 |
tetR-aptamer 12-p(1076)-(2) | 374 | 1.45 | 1.66 |
tetR-aptamer 12-1R(113)-(1) | 304 | 1.68 | 2.21 |
tetR-aptamer 12-1R(113)-(2) | 382 | 1.47 | 1.66 |
tetR-aptamer 12-1M(105)-(1) | 374 | 1.68 | 2.20 |
tetR-aptamer 12-1M(105)-(2) | 286 | 1.31 | 1.43 |
PT181 attenuator-(1) | 330 | 1.66 | 2.11 |
PT181 attenuator-(2) | 270 | 1.68 | 2.18 |
Fusion1 attenuator-(1) | 306 | 1.67 | 2.20 |
Fusion1 attenuator-(2) | 282 | 1.60 | 1.94 |
Fusion3m2 attenuator-(1) | 332 | 1.68 | 2.25 |
Fusion3m2 attenuator-(2) | 326 | 1.67 | 2.10 |
PT181 antisense-(1) | 178 | 1.64 | 1.68 |
PT181 antisense-(2) | 116 | 1.63 | 1.95 |
Fusion1 antisense-(1) | 300 | 1.67 | 2.21 |
Fusion1 antisense-(2) | 164 | 1.42 | 1.46 |
Fusion6 antisense-(1) | 336 | 1.65 | 2.18 |
Fusion6 antisense-(2) | 192 | 1.65 | 2.01 |
Aug 22
Liquid culture
Sample | Medium |
---|---|
8/21 Pcon-RBS-GFP-DT-Pcon-RBS-luxR-DT (1) | 8/21 Plusgrow medium (+Amp) |
8/21 Pcon-RBS-GFP-DT-Pcon-RBS-luxR-DT (2) | 8/21 Plusgrow medium (+Amp) |
8/21 Pcon-RBS-GFP-DT control (1) | 8/21 Plusgrow medium (+Amp) |
8/21 Pcon-RBS-GFP-DT control (2) | 8/21 Plusgrow medium (+Amp) |
8/21 RBS-lysis1 (1) | 8/21 Plusgrow medium (+Amp) |
8/21 RBS-lysis1 (2) | 8/21 Plusgrow medium (+Amp) |
8/21 RBS control (1) | 8/21 Plusgrow medium (+Amp) |
8/21 RBS control (2) | 8/21 Plusgrow medium (+Amp) |
8/21 Ptet(pm)-RBS-tetR-DT (1) | 8/21 Plusgrow medium (+Amp) |
8/21 Ptet(pm)-RBS-tetR-DT (2) | 8/21 Plusgrow medium (+Amp) |
8/21 Ptet(pm) control (1) | 8/21 Plusgrow medium (+Amp) |
8/21 Ptet(pm) control (2) | 8/21 Plusgrow medium (+Amp) |
8/21 Plux-RBS-GFP-DT (1) | 8/21 Plusgrow medium (+Amp) |
8/21 pSB1C3(BBa_J04450) (1) | 8/21 Plusgrow medium (+Amp) |
8/21 pSB1C3(BBa_J04450) (2) | 8/21 Plusgrow medium (+Amp) |
incubate 37°C 10hour
Colony PCR
Sample | base pair |
---|---|
8/21 RBS-lysis1(1) | 400 |
8/21 RBS-lysis1(2) | 400 |
8/21 RBS control(1) | -- |
8/21 RBS control(2) | -- |
negative control | -- |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 30s | 30cycles |
Sample | base pair |
---|---|
8/21 Pcon-GFP-DT-Pcon-RBS-luxR-DT (1) | 2143 |
8/21 Pcon-GFP-DT-Pcon-RBS-luxR-DT (2) | 2143 |
8/21 Pcon-RBS-luxR control(1) | -- |
8/21 Pcon-RBS-luxR control(2) | -- |
negative control | -- |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 2min | 30cycles |
Sample | base pair |
---|---|
8/21 Ptet-RBS-tetR-DT (1) | 1216 |
8/21 Ptet-RBS-tetR-DT (2) | 1216 |
8/21 Ptet control (1) | -- |
8/21 Ptet control (2) | -- |
8/21 Plux-RBS-GFP-DT (1) | 1227 |
8/21 pSB1C3(BBa_J04450) (1) | 1353 |
8/21 pSB1C3(BBa_J04450) (2) | 1353 |
negative control | -- |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 1min | 30cycles |
Restriction Enzyme Digestion
Fusion1 antisense (1) (300 µg/mL) | EcoRI | SpeI | buffer H | MilliQ | total | |
---|---|---|---|---|---|---|
2 cuts | 3.3 | 1 | 1 | 3 | 21.7 | 30 |
1 cut | 0.7 | 0.2 | 0 | 1 | 8.1 | 10 |
1 cut | 0.7 | 0 | 0.2 | 1 | 8.1 | 10 |
NC | 0.7 | 0 | 0 | 1 | 8.3 | 10 |
Fusion1 antisense (1) (300 µg/mL) | XbaI | PstI | buffer M | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 3.3 | 1 | 1 | 3 | 3 | 18.7 | 30 |
1 cut | 0.7 | 0.2 | 0 | 1 | 1 | 7.1 | 10 |
1 cut | 0.7 | 0 | 0.2 | 1 | 1 | 7.1 | 10 |
NC | 0.7 | 0 | 0 | 1 | 1 | 7.3 | 10 |
Fusion6 antisense (1) (336 µg/mL) | EcoRI | SpeI | buffer H | MilliQ | total | |
---|---|---|---|---|---|---|
2 cuts | 3 | 1 | 1 | 3 | 22 | 30 |
1 cut | 0.6 | 0.2 | 0 | 1 | 8.2 | 10 |
1 cut | 0.6 | 0 | 0.2 | 1 | 8.2 | 10 |
NC | 0.6 | 0 | 0 | 1 | 8.4 | 10 |
Fusion6 antisense (1) (336 µg/mL) | XbaI | PstI | buffer M | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 3 | 1 | 1 | 3 | 3 | 19 | 30 |
1 cut | 0.6 | 0.2 | 0 | 1 | 1 | 7.2 | 10 |
1 cut | 0.6 | 0 | 0.2 | 1 | 1 | 7.2 | 10 |
NC | 0.6 | 0 | 0 | 1 | 1 | 7.4 | 10 |
pT181 antisense (1) (178 µg/mL) | EcoRI | SpeI | buffer H | MilliQ | total | |
---|---|---|---|---|---|---|
2 cuts | 5.6 | 1 | 1 | 3 | 19.4 | 30 |
1 cut | 1.1 | 0.2 | 0 | 1 | 7.7 | 10 |
1 cut | 1.1 | 0 | 0.2 | 1 | 7.7 | 10 |
NC | 1.1 | 0 | 0 | 1 | 7.9 | 10 |
pT181 antisense (1) (178 µg/mL) | XbaI | PstI | buffer M | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 5.6 | 1 | 1 | 3 | 3 | 16.4 | 30 |
1 cut | 1.1 | 0.2 | 0 | 1 | 1 | 6.7 | 10 |
1 cut | 1.1 | 0 | 0.2 | 1 | 1 | 6.7 | 10 |
NC | 1.1 | 0 | 0 | 1 | 1 | 6.9 | 10 |
pT181 attenuator (1) | EcoRI | SpeI | buffer H | MilliQ | total | |
---|---|---|---|---|---|---|
2 cuts | 3 | 1 | 1 | 3 | 22 | 30 |
1 cut | 0.6 | 0.2 | 0 | 1 | 8.2 | 10 |
1 cut | 0.6 | 0 | 0.2 | 1 | 8.2 | 10 |
NC | 0.6 | 0 | 0 | 1 | 8.4 | 10 |
pT181 attenuator (1) | XbaI | PstI | buffer M | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 3 | 1 | 1 | 3 | 3 | 19 | 30 |
1 cut | 0.6 | 0.2 | 0 | 1 | 1 | 7.2 | 10 |
1 cut | 0.6 | 0 | 0.2 | 1 | 1 | 7.2 | 10 |
NC | 0.6 | 0 | 0 | 1 | 1 | 7.4 | 10 |
Fusion1 attenuator (1) | EcoRI | SpeI | buffer H | MilliQ | total | |
---|---|---|---|---|---|---|
2 cuts | 3.3 | 1 | 1 | 3 | 21.7 | 30 |
1 cut | 0.7 | 0.2 | 0 | 1 | 8.1 | 10 |
1 cut | 0.7 | 0 | 0.2 | 1 | 8.1 | 10 |
NC | 0.7 | 0 | 0 | 1 | 8.3 | 10 |
Fusion1 attenuator (1) | XbaI | PstI | buffer M | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 3.3 | 1 | 1 | 3 | 3 | 18.7 | 30 |
1 cut | 0.7 | 0.2 | 0 | 1 | 1 | 7.1 | 10 |
1 cut | 0.7 | 0 | 0.2 | 1 | 1 | 7.1 | 10 |
NC | 0.7 | 0 | 0 | 1 | 1 | 7.3 | 10 |
Fusion3m2 attenuator (1) | EcoRI | SpeI | buffer H | MilliQ | total | |
---|---|---|---|---|---|---|
2 cuts | 3 | 1 | 1 | 3 | 22 | 30 |
1 cut | 0.6 | 0.2 | 0 | 1 | 8.2 | 10 |
1 cut | 0.6 | 0 | 0.2 | 1 | 8.2 | 10 |
NC | 0.6 | 0 | 0 | 1 | 8.4 | 10 |
Fusion3m2 attenuator (1) | XbaI | PstI | buffer M | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 3 | 1 | 1 | 3 | 3 | 19 | 30 |
1 cut | 0.6 | 0.2 | 0 | 1 | 1 | 7.2 | 10 |
1 cut | 0.6 | 0 | 0.2 | 1 | 1 | 7.2 | 10 |
NC | 0.6 | 0 | 0 | 1 | 1 | 7.4 | 10 |
Spinach (2) | EcoRI | SpeI | buffer B | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2.3 | 0.5 | 0.5 | 3 | 0.3 | 23.4 | 30 |
1 cut | 0.5 | 0.1 | 0 | 1 | 0.1 | 8.3 | 10 |
1 cut | 0.5 | 0 | 0.1 | 1 | 0.1 | 8.3 | 10 |
NC | 0.5 | 0 | 0 | 1 | 0.1 | 8.4 | 10 |
tetR aptamer 12_P (2) | EcoRI | SpeI | buffer B | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2.7 | 0.5 | 0.5 | 3 | 0.3 | 23 | 30 |
1 cut | 0.5 | 0.1 | 0 | 1 | 0.1 | 8.3 | 10 |
1 cut | 0.5 | 0 | 0.1 | 1 | 0.1 | 8.3 | 10 |
NC | 0.5 | 0 | 0 | 1 | 0.1 | 8.4 | 10 |
tetR aptamer 12_1R (2) | EcoRI | SpeI | buffer B | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2.6 | 0.5 | 0.5 | 3 | 0.3 | 23.1 | 30 |
1 cut | 0.5 | 0.1 | 0 | 1 | 0.1 | 8.3 | 10 |
1 cut | 0.5 | 0 | 0.1 | 1 | 0.1 | 8.3 | 10 |
NC | 0.5 | 0 | 0 | 1 | 0.1 | 8.4 | 10 |
tetR aptamer 12_1M (1) | EcoRI | SpeI | buffer B | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2.7 | 0.5 | 0.5 | 3 | 0.3 | 23 | 30 |
1 cut | 0.5 | 0.1 | 0 | 1 | 0.1 | 8.3 | 10 |
1 cut | 0.5 | 0 | 0.1 | 1 | 0.1 | 8.3 | 10 |
NC | 0.5 | 0 | 0 | 1 | 0.1 | 8.4 | 10 |
J23100 | SpeI | PstI | buffer B | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 7 | 0.5 | 0.5 | 3 | 0.3 | 18.7 | 30 |
1 cut | 1.4 | 0.1 | 0 | 1 | 0.1 | 7.4 | 10 |
1 cut | 1.4 | 0 | 0.1 | 1 | 0.1 | 7.4 | 10 |
NC | 1.4 | 0 | 0 | 1 | 0.1 | 7.5 | 10 |
Plac (2) | SpeI | PstI | buffer B | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 11.2 | 0.5 | 0.5 | 3 | 0.3 | 14.5 | 30 |
1 cut | 2.2 | 0.1 | 0 | 1 | 0.1 | 6.6 | 10 |
1 cut | 2.2 | 0 | 0.1 | 1 | 0.1 | 6.6 | 10 |
NC | 2.2 | 0 | 0 | 1 | 0.1 | 6.7 | 10 |
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | RBS-lysis1 -(1) |
3 | RBS-lysis1 -(2) |
4 | RBS-lysis2 -(1) |
5 | RBS-lysis2 -(2) |
6 | RBS(NC) -(1) |
7 | RBS(NC) -(2) |
8 | NC |
Lane | Sample |
---|---|
1 | 1kb ladder |
2 | Ptet-RBS-tetR-DT -(1) |
3 | Ptet-RBS-tetR-DT -(2) |
4 | Ptet(NC) -(1) |
5 | Ptet(NC) -(2) |
6 | Plux-RBS-GFP-DT -(1) |
7 | pSB1C3 -(1) |
8 | pSB1C3 -(2) |
9 | NC |
Lane | Sample |
---|---|
1 | 1kb ladder |
2 | Pcon-RBS-GFP-DT-Pcon-RBS-luxR-DT -(1) |
3 | Pcon-RBS-GFP-DT-Pcon-RBS-luxR-DT -(2) |
4 | Pcon-RBS-luxR -(1) |
5 | Pcon-RBS-luxR -(2) |
6 | NC |
7 | 1kb ladder |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
8/22 RBS-lysis (1) | 128 | 1.77 | 2.29 |
8/22 RBS-lysis (2) | 96 | 1.80 | 2.07 |
8/22 pSB1C3 (1) | 108 | 1.55 | 1.45 |
8/22 pSB1C3 (2) | 130 | 1.69 | 1.76 |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp | -- | -- |
2 | 8/22 pT181 attenuator (1) | EcoRI | SpeI |
3 | 8/22 pT181 attenuator (1) | EcoRI | -- |
4 | 8/22 pT181 attenuator (1) | -- | SpeI |
5 | 8/22 pT181 attenuator (1) | -- | -- |
6 | 8/22 pT181 attenuator (1) | XbaI | PstI |
7 | 8/22 pT181 attenuator (1) | XbaI | -- |
8 | 8/22 pT181 attenuator (1) | -- | PstI |
9 | 8/22 pT181 attenuator (1) | -- | -- |
10 | 8/22 Fusion6 antisense (1) | EcoRI | SpeI |
11 | 8/22 Fusion6 antisense (1) | EcoRI | -- |
12 | 8/22 Fusion6 antisense (1) | -- | SpeI |
13 | 8/22 Fusion6 antisense (1) | -- | -- |
14 | 100bp | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp | -- | -- |
2 | 8/22 Fusion6 antisense (1) | XbaI | PstI |
3 | 8/22 Fusion6 antisense (1) | XbaI | -- |
4 | 8/22 Fusion6 antisense (1) | -- | PstI |
5 | 8/22 Fusion6 antisense (1) | -- | -- |
6 | 8/22 Fusion1 antisense (1) | EcoRI | SpeI |
7 | 8/22 Fusion1 antisense (1) | EcoRI | -- |
8 | 8/22 Fusion1 antisense (1) | -- | SpeI |
9 | 8/22 Fusion1 antisense (1) | -- | -- |
10 | 8/22 Fusion1 antisense (1) | XbaI | PstI |
11 | 8/22 Fusion1 antisense (1) | XbaI | -- |
12 | 8/22 Fusion1 antisense (1) | -- | PstI |
13 | 8/22 Fusion1 antisense (1) | -- | -- |
14 | 100bp | -- | -- |
Aug 23
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | pT181 antisense | EcoRI | SpeI |
2 | pT181 antisense | EcoRI | -- |
3 | pT181 antisense | -- | SpeI |
4 | pT181 antisense | -- | -- |
5 | pT181 antisense | XbaI | PstI |
6 | pT181 antisense | XbaI | -- |
7 | pT181 antisense | -- | PstI |
8 | pT181 antisense | -- | -- |
9 | 100bp ladder | -- | -- |
10 | Fusion1 attenuator | EcoRI | SpeI |
11 | Fusion1 attenuator | EcoRI | -- |
12 | Fusion1 attenuator | -- | SpeI |
13 | Fusion1 attenuator | -- | -- |
14 | Fusion1 attenuator | XbaI | PstI |
15 | Fusion1 attenuator | XbaI | -- |
16 | Fusion1 attenuator | -- | PstI |
17 | Fusion1 attenuator | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | Fusion3m2 attenuator | EcoRI | SpeI |
2 | Fusion3m2 attenuator | EcoRI | -- |
3 | Fusion3m2 attenuator | -- | SpeI |
4 | Fusion3m2 attenuator | -- | -- |
5 | Fusion3m2 attenuator | XbaI | PstI |
6 | Fusion3m2 attenuator | XbaI | -- |
7 | Fusion3m2 attenuator | -- | PstI |
8 | Fusion3m2 attenuator | -- | -- |
9 | 100bp ladder | -- | -- |
10 | tetR aptamer 12_1M | EcoRI | SpeI |
11 | tetR aptamer 12_1M | EcoRI | -- |
12 | tetR aptamer 12_1M | -- | SpeI |
13 | tetR aptamer 12_1M | -- | -- |
14 | tetR aptamer 12_P | EcoRI | SpeI |
15 | tetR aptamer 12_P | EcoRI | -- |
16 | tetR aptamer 12_P | -- | SpeI |
17 | tetR aptamer 12_P | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | Plac | SpeI | PstI |
2 | Plac | SpeI | -- |
3 | Plac | -- | PstI |
4 | Plac | -- | -- |
5 | Spinach | EcoRI | SpeI |
6 | Spinach | EcoRI | -- |
7 | Spinach | -- | SpeI |
8 | Spinach | -- | -- |
9 | 100bp ladder | -- | -- |
10 | J23100 | SpeI | PstI |
11 | J23100 | SpeI | -- |
12 | J23100 | -- | PstI |
13 | J23100 | -- | -- |
14 | tetR aptamer 12_1R | EcoRI | SpeI |
15 | tetR aptamer 12_1R | EcoRI | -- |
16 | tetR aptamer 12_1R | -- | SpeI |
17 | tetR aptamer 12_1R | -- | -- |
Restriction Enzyme Digestion
Fusion6 antisense (1) | EcoRI | SpeI | buffer B | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 3 | 0.5 | 0.5 | 3 | 0.3 | 22.7 | 30 |
1 cut | 0.6 | 0.1 | 0 | 1 | 0.1 | 8.2 | 10 |
1 cut | 0.6 | 0 | 0.1 | 1 | 0.1 | 8.2 | 10 |
NC | 0.6 | 0 | 0 | 1 | 0.1 | 8.3 | 10 |
Fusion6 antisense (1) | XbaI | PstI | buffer D | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 3 | 0.5 | 0.5 | 3 | 0.3 | 22.7 | 30 |
1 cut | 0.6 | 0.1 | 0 | 1 | 0.1 | 8.2 | 10 |
1 cut | 0.6 | 0 | 0.1 | 1 | 0.1 | 8.2 | 10 |
NC | 0.6 | 0 | 0 | 1 | 0.1 | 8.3 | 10 |
Fusion1 antisense (1) | EcoRI | SpeI | buffer B | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 3.3 | 0.5 | 0.5 | 3 | 0.3 | 22.4 | 30 |
1 cut | 0.7 | 0.1 | 0 | 1 | 0.1 | 8.1 | 10 |
1 cut | 0.7 | 0 | 0.1 | 1 | 0.1 | 8.1 | 10 |
NC | 0.7 | 0 | 0 | 1 | 0.1 | 8.2 | 10 |
pT181 antisense (1) | EcoRI | SpeI | buffer B | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 5.6 | 0.5 | 0.5 | 3 | 0.3 | 20.1 | 30 |
1 cut | 1.1 | 0.1 | 0 | 1 | 0.1 | 7.7 | 10 |
1 cut | 1.1 | 0 | 0.1 | 1 | 0.1 | 7.7 | 10 |
NC | 1.1 | 0 | 0 | 1 | 0.1 | 7.8 | 10 |
pT181 antisense (1) | XbaI | PstI | buffer D | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 5.6 | 0.5 | 0.5 | 3 | 0.3 | 20.1 | 30 |
1 cut | 1.1 | 0.1 | 0 | 1 | 0.1 | 7.7 | 10 |
1 cut | 1.1 | 0 | 0.1 | 1 | 0.1 | 7.7 | 10 |
NC | 1.1 | 0 | 0 | 1 | 0.1 | 7.8 | 10 |
- incubate at 37°C from 17:29.
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp | -- | -- |
2 | pT181 attenuator | EcoRI | SpeI |
3 | pT181 attenuator | XbaI | PstI |
4 | Fusion3m2 attenuator | EcoRI | SpeI |
5 | Fusion1 attenuator | XbaI | PstI |
6 | Fusion1 attenuator | EcoRI | SpeI |
7 | Fusion3m2 attenuator | XbaI | PstI |
8 | pT181 antisense | EcoRI | SpeI |
9 | pT181 antisense | XbaI | PstI |
10 | Fusion1 antisense | EcoRI | SpeI |
11 | Fusion1 antisense | XbaI | PstI |
12 | Fusion6 antisense | EcoRI | SpeI |
13 | Fusion6 antisense | XbaI | PstI |
14 | tetR aptamer 12_1M | EcoRI | SpeI |
15 | tetR aptamer 12_P | EcoRI | SpeI |
16 | tetR aptamer 12_1R | EcoRI | SpeI |
17 | 100bp | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp | -- | -- |
2 | Spinach | EcoRI | SpeI |
3 | J23100 | SpeI | PstI |
4 | Plac | SpeI | PstI |
5 | 100bp | -- | -- |
6 | J23100 | SpeI | PstI |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp | -- | -- |
2 | Fusion6 antisense | EcoRI | SpeI |
3 | Fusion6 antisense | EcoRI | -- |
4 | Fusion6 antisense | -- | SpeI |
5 | Fusion6 antisense | -- | -- |
6 | pT181 antisense | XbaI | PstI |
8 | 100bp | -- | -- |
9 | 100bp | -- | -- |
10 | Fusion6 antisense | XbaI | PstI |
11 | Fusion6 antisense | XbaI | -- |
12 | Fusion6 antisense | -- | PstI |
13 | Fusion6 antisense | -- | -- |
14 | pT181 antisense | XbaI | -- |
16 | 100bp | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp | -- | -- |
2 | Fusion1 antisense | EcoRI | SpeI |
3 | Fusion1 antisense | EcoRI | -- |
4 | Fusion1 antisense | -- | SpeI |
5 | Fusion1 antisense | -- | -- |
6 | pT181 antisense | -- | PstI |
8 | 100bp | -- | -- |
9 | 100bp | -- | -- |
10 | pT181 antisense | EcoRI | SpeI |
11 | pT181 antisense | EcoRI | -- |
12 | pT181 antisense | -- | SpeI |
13 | pT181 antisense | -- | -- |
14 | pT181 antisense | -- | -- |
16 | 100bp | -- | -- |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | pT181 attenuator | XbaI & PstI |
3 | ||
5 | Fusion3m2 attenuator | EcoRI & SpeI |
6 | ||
8 | Fusion1 attenuator | XbaI & PstI |
9 | ||
11 | Fusion1 attenuator | EcoRI & SpeI |
12 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | Fusion3m2 attenuator | XbaI & PstI |
3 | ||
5 | pT181 antisense | EcoRI & SpeI |
6 | ||
8 | pT181 antisense | XbaI & PstI |
9 | ||
11 | Fusion1 antisense | XbaI & PstI |
12 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | Fusion6 attenuator | XbaI & PstI |
3 | ||
5 | aptamer 12_1M | EcoRI & SpeI |
6 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | aptamer 12_P | EcoRI & SpeI |
3 | ||
5 | aptamer 12_1R | EcoRI & SpeI |
6 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | Fusion6 antisense | EcoRI & SpeI |
3 | ||
5 | Fusion6 attenuator | XbaI & PstI |
6 | ||
8 | Fusion1 antisense | EcoRI & SpeI |
9 | ||
11 | pT181 antisense | EcoRI & SpeI |
12 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
3 | pT181 antisense | XbaI & PstI |
4 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
3 | Plac | SpeI & PstI |
4 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
3 | J23100 | SpeI & PstI |
5 | Spinach | EcoRI & SpeI |
6 |
Aug 24
Gel Extraction
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
8/22 aptamer 12_P (EcoRI & SpeI) | 88 | 21.3 | -- |
8/22 aptamer 12_1R (EcoRI & SpeI) | 63 | 23.1 | -- |
8/22 aptamer 12_1M (EcoRI & SpeI) | 40 | 22.0 | -- |
8/23 Fusion6 antisense (EcoRI & SpeI) | 6.0 | 1.60 | 0.17 |
8/23 Fusion6 antisense (XbaI & PstI) | 6.0 | 1.71 | 0.25 |
8/23 pT181 antisense (EcoRI & SpeI) | 6.0 | 2.22 | 0.15 |
8/23 pT181 antisense (XbaI & PstI) | 6.0 | 2.10 | 0.04 |
8/22 Plac (SpeI & PstI) | 6.0 | 1.47 | 0.09 |
8/22 Fusion1 antisense (EcoRI & SpeI) | 10 | 2.16 | 0.01 |
8/22 J23100 (SpeI & PstI) | 6.0 | 1.52 | 0.35 |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
8/22 Spinach (EcoRI & SpeI) | 8.0 | 1.15 | 0.77 |
8/22 Fusion6 antisense (XbaI & PstI) | 44 | 1.07 | 0.96 |
8/22 Fusion1 antisense (XbaI & PstI) | 2 | -- | 1.00 |
8/22 pT181 antisense (XbaI & PstI) | 3. | 2.01 | 0.40 |
8/22 pT181 antisense (EcoRI & SpeI) | 8 | 1.13 | 0.82 |
8/22 Fusion3m2 attenuator (XbaI & PstI) | 5 | 2.27 | 1.50 |
8/22 Fusion3m2 attenuator (EcoRI & SpeI) | 34 | 1.16 | 1.02 |
8/22 Fusion1 attenuator (XbaI & PstI) | 14 | 1.40 | 0.62 |
8/22 Fusion1 attenuator (EcoRI & SpeI) | 16 | 1.27 | 0.61 |
8/22 pT181 attenuator (XbaI & PstI) | 5 | -- | 0.88 |
- These samples were performed ethanol ethanl precipitation.
Restriction Enzyme Digestion
tetR aptamer 12_P(2) | EcoRI | SpeI | 10x Buffer B | 100x BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2.7µL | 0.5µL | 0.5µL | 3µL | 0.3µL | 23µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 1µL | 0.1µL | 8.6µL | 10µL |
tetR aptamer 12_1R(2) | EcoRI | SpeI | 10x Buffer B | 100x BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2.6µL | 0.5µL | 0.5µL | 3µL | 0.3µL | 23.1µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 1µL | 0.1µL | 8.6µL | 10µL |
tetR aptamer 12_M(1) | EcoRI | SpeI | 10x Buffer B | 100x BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2.7µL | 0.5µL | 0.5µL | 3µL | 0.3µL | 23µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 1µL | 0.1µL | 8.6µL | 10µL |
Master Plate
Number | Use LB plate(+Kan) |
---|---|
1 | entA- #1 |
2 | entA- #1 |
3 | entA- #1 |
4 | entA- #2 |
5 | entA- #2 |
6 | entA- #2 |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | - | - |
2 | tetR aptamer 12_P | EcoRI | SpeI |
3 | tetR aptamer 12_P | - | - |
4 | tetR aptamer 12_1R | EcoRI | SpeI |
5 | tetR aptamer 12_1R | - | - |
6 | tetR aptamer 12_1M | EcoRI | SpeI |
7 | tetR aptamer 12_1M | - | - |
8 | 100bp ladder | - | - |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | - | - |
2 | tetR aptamer 12_P | EcoRI | SpeI |
3 | tetR aptamer 12_1R | EcoRI | SpeI |
4 | tetR aptamer 12_1M | EcoRI | SpeI |
5 | 100bp ladder | - | - |
Aug 26
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | - |
2 | 8/24 tetR aptamer 12_P | EcoRI & SpeI |
4 | 8/24 tetR aptamer 12_1R | EcoRI & SpeI |
6 | 8/24 tetR aptamer 12_M | EcoRI & SpeI |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
tetR aptamer 12_P (EcoRI & SpeI) | 2.3 | 0.38 | 0.13 |
tetR aptamer 12_1R (EcoRI & SpeI) | 12.0 | 0.63 | 1.19 |
tetR aptamer 12_M (EcoRI & SpeI) | 2.0 | 6.43 | 0.03 |
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 8/21 DT | 5.0 | 8/26 tetR aptamer 12_1R | 2.0 | 3.5 |
experiment | 8/21 DT | 5.0 | 8/22 pT181 atteniator | 5.0 | 5.0 |
experiment | 8/21 DT | 5.0 | 8/22 pT181 antisense | 3.0 | 4.0 |
experiment | 8/21 DT | 5.0 | 8/22 Spinach | 3.0 | 4.0 |
experiment | 8/22 Plac | 4.0 | 8/22 pT181 attenuator | 5.0 | 4.5 |
experiment | 8/22 J23100 | 4.0 | 8/22 pT181 attenuator | 5.0 | 4.5 |
experiment | 8/22 Plac | 4.0 | 8/22 pT181 antisense | 8.0 | 6.0 |
experiment | 8/22 J23100 | 4.0 | 8/22 pT181 antisense | 8.0 | 6.0 |
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
8/26 tetR aptamer 12_1R-DT | 1µL | 10µL | 11µL | CP |
8/26 pT181 attenuator-DT | 1µL | 10µL | 11µL | CP |
8/26 pT181 antisense-DT | 1µL | 10µL | 11µL | CP |
8/26 Spinach-DT | 1µL | 10µL | 11µL | CP |
8/26 Plac-pT181 attenuator | 1µL | 10µL | 11µL | CP |
8/26 Pcon-pT181 attenuator | 1µL | 10µL | 11µL | Amp |
8/26 Plac-pT181 antisense | 1µL | 10µL | 11µL | CP |
8/26 Pcon-pT181 antisense | 1µL | 10µL | 11µL | Amp |
Pλ-RBS-luxI-DT | 1µL | 10µL | 11µ | Amp |
Aug 27
Restriction Enzyme Digestion
8/21 pT181 attenuator-1(330µg/mL) | EcoRI | SpeI | 10x BufferB | 100x BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 3.0µL | 0.5µL | 0.5µL | 3.0µL | 0.3µL | 22.7µL | 30µL |
NC | 0.6µL | 0µL | 0µL | 1µL | 0.1µL | 8.3µL | 10µL |
8/17 DT-1(188µg/mL) | EcoRI | XbaI | 10x BufferB | 100x BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 3.0µL | 0.5µL | 0.5µL | 3.0µL | 0.3µL | 22.7µL | 30µL |
NC | 1.0µl | 0µL | 0µL | 1µL | 0.1µL | 7.9µL | 10µL |
8/20 Pcon-RBS-luxR-DT-2(344µg/mL) | EcoRI | SpeI | 10x BufferB | 100x BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2.9µL | 0.5µL | 0.5µL | 3.0µL | 0.3µL | 22.8µL | 30µL |
NC | 0.6µl | 0µL | 0µL | 1µL | 0.1µL | 8.3µL | 10µL |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | 8/21 pT181 attenuator | EcoI | SpeI |
3 | 8/21 pT181 atteniator | -- | -- |
4 | 8/17 DT-1 | EcoRI | XbaI |
5 | 8/17 DT-1 | -- | -- |
6 | 8/20 Pcon-RBS-luxR-DT-2 | EcoI | SpeI |
7 | 8/20 Pcon-RBS-luxR-DT-2 | -- | -- |
8 | 100bp ladder | -- | -- |
Colony PCR
Liquid Culture
Sample | medium |
---|---|
8/26 Pλ-RBS-luxI-DT-1 | Plusgrow medium (+Amp) |
8/26 Pλ-RBS-luxI-DT-2 | Plusgrow medium (+Amp) |
Restriction Enzyme Digestion
8/21 pT181 attenuator-1(330µg/mL) | EcoRI | SpeI | 10x BufferB | 100x BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 3.0µL | 0.5µL | 0.5µL | 3.0µL | 0.3µL | 22.7µL | 30µL |
NC | 0.6µL | 0µL | 0µL | 1µL | 0.1µL | 8.3µL | 10µL |
8/17 DT-1(188µg/mL) | EcoRI | XbaI | 10x BufferB | 100x BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 3.0µL | 0.5µL | 0.5µL | 3.0µL | 0.3µL | 22.7µL | 30µL |
NC | 1.0µl | 0µL | 0µL | 1µL | 0.1µL | 7.9µL | 10µL |
8/20 Pcon-RBS-luxR-DT-2(344µg/mL) | EcoRI | SpeI | 10x BufferB | 100x BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2.9µL | 0.5µL | 0.5µL | 3.0µL | 0.3µL | 22.8µL | 30µL |
NC | 0.6µl | 0µL | 0µL | 1µL | 0.1µL | 8.3µL | 10µL |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
100bp ladder | -- | -- | |
1 | pT181 attenuator | EcoRI | SpeI |
2 | pT181 attenuator | -- | -- |
3 | DT-(1) | EcoRI | XbaI |
4 | DT-(1) | -- | -- |
5 | Pcon-RBS-luxR-DT-(2) | EcoRI | SpeI |
6 | Pcon-RBS-luxR-DT-(2) | -- | -- |
100bp ladder | -- | -- |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100bpladder | -- |
2 | pT181 attenuator-1 | EcoRI&SpeI |
3 | pT181 attenuator-1 | EcoRI&SpeI |
4 | DT-1 | EcoRI&XbaI |
5 | DT-1 | EcoRI&XbaI |
6 | Pcon-RBS-luxR-DT-2 | EcoRI&SpeI |
7 | Pcon-RBS-luxR-DT-2 | EcoRI&SpeI |
8 | 100bpladder | -- |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
pT181 attenuator-1(EcoRI&SpeI) | 4.2 | 1.62 | 0.29 |
DT-1(EcoRI&XbaI) | 17 | 1.88 | 0.88 |
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
8/26 tetR aptamer 12_1R-DT | 1µL | 10µL | 11µL | CP |
8/26 pT181 attenuator-DT | 1µL | 10µL | 11µL | CP |
8/26 pT181 antisense-DT | 1µL | 10µL | 11µL | CP |
8/26 Spinach-DT | 1µL | 10µL | 11µL | CP |
8/26 Plac-pT181 attenuator | 1µL | 10µL | 11µL | CP |
8/26 Pcon-pT181 attenuator | 1µL | 10µL | 11µL | Amp |
8/26 Plac-pT181 antisense | 1µL | 10µL | 11µL | CP |
8/26 Pcon-pT181 antisense | 1µL | 10µL | 11µL | Amp |
Liquid culture
Sample | medium |
---|---|
8/16 Plux | Plusgrow medium(+CP) |
Genome PCR
genome DNA | KOD plus | 10x buffer | dNTP | MgSO4 | SasA_fwd primer | SasA_rev primer | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.5 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 16 | 25 |
genome DNA | KOD plus | 10x buffer | dNTP | MgSO4 | RpaA_fwd primer | RpaA_rev primer | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.5 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 16 | 25 |
genome DNA | KOD plus | 10x buffer | dNTP | MgSO4 | RpaB_fwd primer | RpaB_rev primer | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.5 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 16 | 25 |
genome DNA | KOD plus | 10x buffer | dNTP | MgSO4 | PkaiBC_fwd primer | PkaiBC_rev primer | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.5 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 16 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 50°C | 68°C | -- |
2 min | 10 sec | 30 sec | 38 sec | 30 cycles |
Ligation
state | Vector | Inserter | ||
---|---|---|---|---|
experiment | 8/27 DT (EcoRI & XbaI) | 2.8 | 8/21 RBS-lysis3 (EcoRI & SpeI) | |
experiment | 8/27 DT (EcoRI & XbaI) | 2.8 | 8/27 pT181 attenuator (EcoRI & SpeI) |
- Samples were evaporeted used evaporator into about 3 µL.
sample | MilliQ | Ligation High | total |
---|---|---|---|
3 | 4 | 3.5 | 10.5 |
- incubate overnight at 4 °C
Aug 28
Electrophoresis
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
8/27 Plux | 173.8 | 1.95 | 1.45 |
Ligation
state | Vector | Inserter | ||
---|---|---|---|---|
experiment | 8/17 DT-1 | 3.0 | 8.0 |
- Samples were evaporeted used evaporator into about 3 µL.
sample | MilliQ | Ligation High | total |
---|---|---|---|
3 | 4 | 3.5 | 10.5 |
- incubate one hour at 16 °C
Gel Extraction
Lane | DNA |
---|---|
1 | 100bpladder |
3 | SasA(8/27 Genome PCR production) |
5 | RpaA(8/27 Genome PCR production) |
7 | RpaB(8/27 Genome PCR production) |
9 | PkaiBC(8/27 Genome PCR production) |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
RpaA | 15.4 | 1.88 | 0.03 |
SasA | 21.6 | 1.66 | 0.79 |
PkaiBC | 16.3 | 1.79 | 0.68 |
RpaB | 26.7 | 1.77 | 0.82 |
Colony PCR
Sample | base pair |
---|---|
8/21 RBS-lysis2-(3) | 772 |
8/21 RBS-lysis2-(4) | 772 |
8/21 RBS-lysis2-(5) | 772 |
8/21 RBS-lysis2-(6) | 772 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 48s | 30cycles |
Restriction Enzyme Digestion
8/22 RBS-lysis1-(1) | EcoRI | SpeI | BufferB | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 9µL | 0.5µL | 0.5µL | 3µL | 0.3µL | 16.7µL | 30µL |
NC | 1µL | 0µL | 0µL | 1µL | 0.1µL | 7.9µL | 10µL |
8/17 RBS-GFP-DT-(2) | XbaI | PstI | BufferD | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 4µL | 0.5µL | 0.5µL | 3µL | 0.3µL | 21.7µL | 30µL |
NC | 0.5µL | 0µL | 0µL | 1µL | 0.1µL | 8.4µL | 10µL |
8/20 Pcon-RBS-GFP-DT-(1) | EcoRI | SpeI | BufferB | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 3µL | 0.5µL | 0.5µL | 3µL | 0.3µL | 22.7µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 1µL | 0.1µL | 8.6µL | 10µL |
8/20 Pcon-RBS-luxR-DT-(1) | EcoRI | XbaI | BufferD | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 2µL | 0.5µL | 0.5µL | 3µL | 0.3µL | 23.7µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 1µL | 0.1µL | 8.6µL | 10µL |
8/28 Plux | SpeI | PstI | BufferD | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 6µL | 0.5µL | 0.5µL | 3µL | 0.3µL | 19.7µL | 30µL |
NC | 1µL | 0µL | 0µL | 1µL | 0.1µL | 7.9µL | 10µL |
8/20 RBS-tetR-DT-(1) | XbaI | PstI | BufferD | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 5µL | 0.5µL | 0.5µL | 3µL | 0.3µL | 20.7µL | 30µL |
NC | 0.5µL | 0µL | 0µL | 1µL | 0.1µL | 8.4µL | 10µL |
- incubated 37°C 1hour
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 8/22 RBS-lysis1-(1) | EcoRI | SpeI |
2 | 8/22 RBS-lysis1-(1) | -- | -- |
3 | 8/17 RBS-GFP-DT-(2) | XbaI | PstI |
4 | 8/17 RBS-GFP-DT-(2) | -- | -- |
5 | 8/20 Pcon-RBS-GFP-DT-(1) | EcoRI | SpeI |
6 | 8/20 Pcon-RBS-GFP-DT-(1) | -- | -- |
7 | 100bp ladder | -- | -- |
8 | 8/20 Pcon-RBS-luxR-DT-(1) | EcoRI | XbaI |
9 | 8/20 Pcon-RBS-luxR-DT-(1) | -- | -- |
10 | 8/28 Plux | SpeI | PstI |
11 | 8/28 Plux | -- | -- |
12 | 8/20 RBS-tetR-DT | XbaI | PstI |
13 | 8/20 RBS-tetR-DT | -- | -- |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | 8/20 RBS-lysis1-(1) | EcoRI & SpeI |
3 | ||
4 | -- | -- |
5 | 8/28 RBS-GFP-DT-(2) | XbaI & PstI |
6 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | 8/28 Plux | SpeI & PstI |
3 | ||
4 | -- | -- |
5 | 8/20 RBS-tetR-DT-(1) | XbaI & PstI |
6 |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Pcon-RBS-GFP-DT (EcoRI&SpeI) | 7.1 | 1.88 | 0.07 |
Pcon-RBS-luxR-DT (EcoRI&XbaI) | 15.3 | 1.93 | 0.70 |
Plux (SpeI&PstI) | 4.5 | 1.79 | 0.31 |
RBS-GFP-DT (XbaI&PstI) | 6.0 | 2.16 | 0.03 |
RBS-tetR-DT (XbaI&PstI) | 7.6 | 1.91 | 0.38 |
Colony PCR
Sample | base pair |
---|---|
8/27 pT181 attenuator-DT-1 | 738 |
8/27 pT181 attenuator-DT-2 | 738 |
8/27 pT181 attenuator-DT-3 | 738 |
8/27 TetR-aptamer 12_1R-DT-1 | 521 |
8/27 TetR-aptamer 12_1R-DT-2 | 521 |
8/27 pT181 antisense-DT-1 | 542 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 30s | 30cycles |
Sample | base pair |
---|---|
8/27 Pλ-luxI-1 | -- |
8/27 Pλ-luxI | -- |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 30min | 3cycles |
Colony PCR
No name
Sample | base pair |
---|---|
8/21 RBS-lysis2-9 | 772 |
8/21 RBS-lysis2-10 | 772 |
8/21 RBS-lysis2-11 | 772 |
8/21 RBS-lysis2-12 | 772 |
8/21 RBS-lysis2-13 | 772 |
8/21 RBS-lysis2-14 | 772 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 48s | 30cycles |
Liquid Culture
Sample | medium |
---|---|
8/16 Master Plate(CP)-6 DT | Plusgrow medium(+CP) |
J23100 Master Plate-1 | Plusgrow medium(+Amp) |
Plac Master Plate-1 | Plusgrow medium(+CP) |
Ligation
state | Vector | Inserter | ||
---|---|---|---|---|
experiment | 8/27 DT (EcoRI & XbaI) | 2.9 | 8/28 RBS-lysis1 (EcoRI & SpeI) | 9.5 |
experiment | 8/28 Plux (SpeI & PstI) | 2.3 | 8/28 RBS-GFP-DT (XbaI & PstI) | 18 |
experiment | 8/28 Pcon-RBS-luxR-DT (EcoRI & XbaI) | 3.3 | 8/28 Pcon^RBS-GFP-DT-(1) (EcoRI & SpeI) | 28 |
experiment | 8/27 DT (EcoRI & XbaI) | 2.7 | 8/24 Spinach (EcoRI & SpeI) | 2.4 |
- Samples were evaporeted used evaporator into about 1 µL.
sample | MilliQ | Ligation High | total |
---|---|---|---|
1 | 3 | 4 | 9 |
- incubate overnight at 4 °C
Liquid Culture
Sample | medium |
---|---|
8/26 Pλ-RBS-luxI-DT-1 | Plusgrow medium (+Amp) |
8/26 Pλ-RBS-luxI-DT-2 | Plusgrow medium (+Amp) |
- incubate 37°C 10hour
Aug 29
Colony PCR
Sample | base pair |
---|---|
8/27 Pcon-pT181 antisense-(1) | 542 |
8/26 pT181 attenuator-DT-(1) | 738 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 30s | 30cycles |
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | 8/27 Pcon-pT181antisense-1 |
3 | 8/26 pT181attenuator-DT-1 |
4 | 100bp ladder |
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | 8/21 RBS-lysis2-9(Colony PCR prodution) |
3 | 8/21 RBS-lysis2-8(Colony PCR prodution) |
4 | 8/21 RBS-lysis2-7(Colony PCR prodution) |
5 | 8/21 RBS-lysis2-10(Colony PCR prodution) |
6 | 8/21 RBS-lysis2-11(Colony PCR prodution) |
7 | 8/21 RBS-lysis2-12(Colony PCR prodution) |
8 | 8/21 RBS-lysis2-13(Colony PCR prodution) |
9 | 8/21 RBS-lysis2-14(Colony PCR prodution) |
Miniprep
DNA | concentration [µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Plac | 153.7 | 2.03 | 2.10 |
Pλ-luxⅠ-(1) | 76.5 | 2.07 | 2.06 |
Pλ-luxⅠ-(2) | 86.4 | 2.08 | 2.10 |
DT | 166.2 | 1.65 | 2.12 |
J23100 | 190.1 | 1.68 | 2.34 |
Liquid Culture
Sample | medium |
---|---|
8/21 RBS-Lysis2-9 | Plusgrow medium(+Amp) |
8/21 RBS-Lysis2-12 | Plusgrow medium(+Amp) |
8/21 RBS-Lysis2-14 | Plusgrow medium(+Amp) |
Restriction Enzyme Digestion
8/22 psB1C3-(2) | EcoRI | SpeI | XbaI | PstI | BufferB | BufferD | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|---|
2 cuts | 8µL | 0.5µL | 0.5µL | 0µL | 0µL | 3µL | 0µL | 0.3µL | 17.7µL | 30µL |
NC | 1µL | 0µL | 0µL | 0µL | 0µL | 1µL | 0µL | 0.1µL | 7.9µL | 10µL |
2 cuts | 8µL | 0µL | 0µL | 0.5µL | 0.5µL | 0µL | 3µL | 0.3µL | 17.7µL | 30µL |
NC | 1µL | 0µL | 0µL | 0µL | 0µL | 0µL | 1µL | 0.1µL | 7.9µL | 10µL |
8/21 tRMA-spinach(1) | XbaI | SpeI | BufferB | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 4µL | 0.5µL | 0.5µL | 3µL | 0.3µL | 21.7µL | 30µL |
NC | 0.5µL | 0µL | 0µL | 1µL | 0.1µL | 8.4µL | 10µL |
8/21 tetR aptamer12-1R(1) | EcoRI | SpeI | BufferB | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 3µL | 0.5µL | 0.5µL | 3µL | 0.3µL | 22.7µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 1µL | 0.1µL | 8.5µL | 10µL |
8/21 PT181 attenuator-(2) | EcoRI | SpeI | XbaI | PstI | BufferB | BufferD | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|---|
2 cuts | 4µL | 0.5µL | 0.5µL | 0µL | 0µL | 3µL | 0µL | 0.3µL | 21.7µL | 30µL |
NC | 0.5µL | 0µL | 0µL | 0µL | 0µL | 1µL | 0µL | 0.1µL | 8.4µL | 10µL |
2 cuts | 4µL | 0µL | 0µL | 0.5µL | 0.5µL | 0µL | 3µL | 0.3µL | 21.7µL | 30µL |
NC | 0.5µL | 0µL | 0µL | 0µL | 0µL | 0µL | 1µL | 0.1µL | 8.4µL | 10µL |
8/21 PT181 antisense-(2) | EcoRI | SpeI | XbaI | PstI | BufferB | BufferD | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|---|
2 cuts | 10µL | 0.5µL | 0.5µL | 0µL | 0µL | 3µL | 0µL | 0.3µL | 15.7µL | 30µL |
NC | 1µL | 0µL | 0µL | 0µL | 0µL | 1µL | 0µL | 0.1µL | 7.9µL | 10µL |
2 cuts | 10µL | 0µL | 0µL | 0.5µL | 0.5µL | 0µL | 3µL | 0.3µL | 15.7µL | 30µL |
NC | 1µL | 0µL | 0µL | 0µL | 0µL | 0µL | 1µL | 0.1µL | 7.9µL | 10µL |
- incubated 37°C 1hour
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
8/27 pT181 attenuator-DT | 2µL | 20µL | 22µL | CP |
8/27 RBS-lysis3-DT | 2µL | 20µL | 22µL | CP |
8/28 RBS-lysis3-DT | 2µL | 20µL | 22µL | CP |
8/28 Pcon-RBS-GFP-DT-Pcon-RBS-LuxR-DT | 2µL | 20µL | 22µL | Amp |
8/28 RBS-lysis1-DT | 2µL | 20µL | 22µL | CP |
8/28 Plux-RBS-GFP-DT | 2µL | 20µL | 22µL | CP |
8/28 Spinach-DT | 2µL | 20µL | 22µL | CP |
Gel Extraction
Lane | DNA | Enzyme1 | Enzyme2 |
---|---|---|---|
100bp ladder | -- | -- | |
9 | 8/29 pT181attenuator(2) | EcoRI | SpeI |
10 | 8/29 pT181attenuator(2) | EcoRI | SpeI |
11 | 8/29 pT181attenuator(2) | XbaI | PstI |
12 | 8/29 pT181attenuator(2) | XbaI | PstI |
13 | pT181antisense(2) | EcoRI | SpeI |
14 | pT181antisense(2) | EcoRI | SpeI |
15 | pT181antisense(2) | XbaI | PstI |
16 | pT181antisense(2) | XbaI | PstI |
100bp ladder | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
100bp ladder | -- | -- | |
1 | 8/29 pSB1C3 | EcoRI | SpeI |
2 | 8/29 pSB1C3 | EcoRI | SpeI |
3 | 8/29 pSB1C3 | XbaI | PstI |
4 | 8/29 pSB1C3 | XbaI | PstI |
5 | 8/29 spinach | EcoRI | SpeI |
6 | 8/29 spinach | EcoRI | SpeI |
7 | 8/29 tetRaptarmer12-1R(1) | EcoRI | SpeI |
8 | 8/29 tetRaptarmer12-1R(1) | EcoRI | SpeI |
100bp ladder | -- | -- |
Aug 30
Gel Extraction
Name | quantity | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|---|
pT181 attenuator(2) (EcoRI & SpeI) | 305.3 | 2.2 | 1.66 | 0.36 |
pT181 attenuator(2) (XbaI & PstI) | 217.7 | 3.9 | 1.73 | 0.04 |
pT181 antisense(2) (EcoRI & SpeI) | 347.7 | 3.1 | 1.88 | 0.31 |
pT181 antisense(2) (XbaI & PstI) | 376.5 | 5.9 | 0.49 | 2.36 |
pSB1C3 (EcoRI & SpeI) | 436.6 | 30.7 | 1.03 | 1.28 |
pSB1C3 (XbaI & PstI) | 457.4 | 7.9 | 1.65 | 0.42 |
Spinach (EcoRI & SpeI) | 490.5 | 3.0 | 1.87 | 0.26 |
tetR aptamer 12_1R (EcoRI & SpeI) | 451.7 | -12.8 | 5.56 | -0.04 |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
RBS-lysis2 9 | 264.6 | 1.97 | 2.21 |
RBS-lysis2 12 | 220.0 | 1.89 | 2.46 |
RBS-lysis2 14 | 195.3 | 1.88 | 1.53 |
Colony PCR
Sample | base pair |
---|---|
8/29 Pcon-RBS-GFP-DT-Pcon-RBS-luxR-DT(8/20 LB Amp) (1)~(4) | 2143 |
8/29 Plux-RBS-GFP-DT(8/27 LB-CP) (1)~(2) | 1227 |
8/29 Pbad/araC-RBS-RFP{BBa_I13516} (8/21 LB-CP) (1)~(2) | 2256 |
8/29 RBS-lysis3-DT-(1) | 1210 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 2min | 30cycle |
Ethanol Precipitation
DNA |
---|
pT181 attenuator-(2) (EcoRI & SpeI) |
pT181 attenuator-(2) (XbaI & PstI) |
pT181 antisense-(2) (EcoRI & SpeI) |
pT181 antisense-(2) (XbaI & PstI) |
pSB1C3 (EcoRI & SpeI) |
pSB1C3 (XbaI & PstI) |
Spinach (EcoRI & SpeI) |
tetR aptamer 12_1R (EcoRI & SpeI) |
Restriction Enzyme Digestion
8/30 RBS-lysis2 (9) | EcoRI | SpeI | 10x bufferB | 100x BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 7.5 µL | 0.5 µL | 0.5 µL | 3 µL | 0.3 µL | 18.2 µL | 30 µL |
NC | 0.5 µL | 0 µL | 0 µL | 1 µL | 0.1 µL | 8.4 µL | 10 µL |
8/22 pSB1C3-(2) | EcoRI | SpeI | 10x Buffer | 100x BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 8 µL | 0.5 µL | 0.5 µL | 3 µL | 0.3 µL | 17.7 µL | 30 µL |
NC | 1 µL | 0 µL | 0 µL | 1 µL | 0.1 µL | 7.9 µL | 10 µL |
8/22 pSB1C3-(2) | XbaI | PstI | BufferD | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 8 µL | 0.5 µL | 0.5 µL | 3 µL | 0.3 µL | 17.7 µL | 30 µL |
NC | 1 µL | 0 µL | 0 µL | 1 µL | 0.1 µL | 7.9 µL | 10 µL |
8/21 Spinach (1) | EcoRI | SpeI | 10x BufferB | 100x BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 4 µL | 0.5 µL | 0.5 µL | 3 µL | 0.3 µL | 21.9 µL | 30 µL |
NC | 0.5 µL | 0 µL | 0 µL | 1 µL | 0.1 µL | 8.4 µL | 10 µL |
8/21 tetR aptamer 12_1R (1) | EcoRI | SpeI | 10xBufferB | 100xBSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 3 µL | 0.5 µL | 0.5 µL | 3 µL | 0.3 µL | 22.7 µL | 30 µL |
NC | 0.4 µL | 0 µL | 0 µL | 1 µL | 0.1 µL | 8.4 µL | 10 µL |
8/21 pT181 attenuator-(2) | EcoRI | SpeI | XbaI | PstI | 10x BufferB | 10x BufferD | 100x BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|---|
2 cuts | 4 µL | 0.5 µL | 0.5 µL | 0 µL | 0 µL | 3 µL | 0 µL | 0.3 µL | 21.7 µL | 30 µL |
NC | 0.5 µL | 0 µL | 0 µL | 0 µL | 0 µL | 1 µL | 0 µL | 0.1 µL | 8.4 µL | 10 µL |
2 cuts | 4 µL | 0 µL | 0 µL | 0.5 µL | 0.5 µL | 0 µL | 3 µL | 0.3 µL | 21.7 µL | 30 µL |
NC | 0.5 µL | 0 µL | 0 µL | 0 µL | 0 µL | 0 µL | 1 µL | 0.1 µL | 8.4 µL | 10 µL |
8/21 pT181 antisense-(2) | EcoRI | SpeI | XbaI | PstI | 10x BufferB | 10x BufferD | 100x BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|---|
2 cuts | 9 µL | 0.5 µL | 0.5 µL | 0 µL | 0 µL | 3 µL | 0 µL | 0.3 µL | 16.7 µL | 30 µL |
NC | 1 µL | 0 µL | 0 µL | 0 µL | 0 µL | 1 µL | 0 µL | 0.1 µL | 7.9 µL | 10 µL |
2 cuts | 9 µL | 0 µL | 0 µL | 0.5 µL | 0.5 µL | 0 µL | 3 µL | 0.3 µL | 16.7 µL | 30 µL |
NC | 1 µL | 0 µL | 0 µL | 0 µL | 0 µL | 0 µL | 1 µL | 0.1 µL | 7.9 µL | 10 µL |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | RBS-lysis2-(9) | EcoRI | SpeI |
3 | RBS-lysis2-(9) | -- | -- |
4 | pSB1C3-(2) | EcoRI | SpeI |
5 | pSB1C3-(2) | -- | -- |
6 | pSB1C3-(2) | XbaI | PstI |
7 | pSB1C3-(2) | -- | -- |
8 | tRNA-Spinach-(1) | EcoRI | SpeI |
9 | tRNA-Spinach-(1) | -- | -- |
10 | tetR aptamer12_1R | EcoRI | SpeI |
11 | tetR aptamer12_1R | -- | -- |
12 | pT181 attenuator | EcoRI | SpeI |
13 | pT181 attenuator | EcoRI | SpeI |
14 | 100bp ladder | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | pT181 antisense | EcoRI | SpeI |
3 | pT181 antisense | -- | -- |
4 | pT181 antisense | XbaI | PstI |
5 | pT181 antisense | -- | -- |
6 | pT181 attenuator | XbaI | PstI |
7 | pT181 attenuator | -- | -- |
8 | 100bp ladder | -- | -- |
Lane | Sample |
---|---|
1 | 1kb ladder |
2 | 8/29 Pcon-RBS-GFP-DT-Pcon-RBS-luxR-DT-(1)(Colony PCR product) |
3 | 8/29 Pcon-RBS-GFP-DT-Pcon-RBS-luxR-DT-(2)(Colony PCR product) |
4 | 8/29 Pcon-RBS-GFP-DT-Pcon-RBS-luxR-DT-(3)(Colony PCR product) |
5 | 8/29 Pcon-RBS-GFP-DT-Pcon-RBS-luxR-DT-(4)(Colony PCR product) |
6 | Pbad/araC-RBS-RFP-DT-(1)(Colony PCR product) |
7 | Pbad-araC-RBS-RFP-DT-(2)(Colony PCR product) |
Liquid Culture
Sample | medium |
---|---|
8/29 Pcon-RBS-GFP-DT-Pcon-RBS-luxR-DT-(1) | Plusgrow medium(+Amp) |
8/29 Pcon-RBS-GFP-DT-Pcon-RBS-luxR-DT-(2) | Plusgrow medium(+Amp) |
8/29 Pcon-RBS-GFP-DT-Pcon-RBS-luxR-DT-(3) | Plusgrow medium(+Amp) |
8/29 Pcon-RBS-GFP-DT-Pcon-RBS-luxR-DT-(4) | Plusgrow medium(+Amp) |
8/29 Plux-RBS-GFP-DT-(1) | Plusgrow medium(+CP) |
8/29 Plux-RBS-GFP-DT-(2) | Plusgrow medium(+CP) |
8/29 Pbad/araC-RBS-RFP-DT-(1) | Plusgrow medium(+CP) |
8/29 Pbad-araC-RBS-RFP-DT-(2) | Plusgrow medium(+CP) |
RBS-lysis3-DT-(1) | Plusgrow medium(+CP) |
Aug 31
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | -- | -- |
3 | RBS-lysis2-(9) | EcoRI & SpeI |
4 | ||
5 | -- | -- |
6 | pSB1C3(1) | EcoRI & SpeI |
7 | ||
8 | -- | -- |
9 | pSB1C3(1) | XbaI & PstI |
10 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | tRNA-Spinach | EcoRI & SpeI |
3 | ||
4 | -- | -- |
5 | pT181 attenuator-(2) | EcoRI & SpeI |
6 | ||
7 | pT181 attenuator-(2) | XbaI & PstI |
8 | ||
9 | -- | -- |
10 | pT181 antisense-(2) | EcoRI & SpeI |
11 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | pT181 antisense | XbaRI & PstI |
3 | ||
4 | -- | -- |
5 | tetR aptamer 12_1R-(1) | EcoRI & SpeI |
6 |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
RBS-lysis2(EcoRI&SpeI) | 4.0 | 2.69 | 0.24 |
pSB1C3(EcoRI&SpeI) | 6.0 | 2.48 | 0.05 |
pSB1C3(XbaI&PstI) | -- | -- | -- |
tRNA-Spinach | -- | -- | -- |
pT181 attenuator-(2)(EcoRI&SpeI) | -- | -- | -- |
pT181 anttenuator-(2)(SbaI&PstI) | -- | -- | -- |
pT181 antisense-(2)(EcoRI&SpeI) | -- | -- | -- |
pT181 antisense-(2)(XbaI&PstI) | -- | -- | -- |
tetR aptamer 12_1R(EcoRI&SpeI) | -- | -- | -- |
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 8/30 pSB1C3 (EcoRI & SpeI) | 6.6 | 8/30 tRNA-Spinach (EcoRI & SpeI) | 12.5 | 3.5 |
experiment | 8/30 pSB1C3 (EcoRI & SpeI) | 6.6 | 8/30 pT181 antisense (EcoRI & SpeI) | 12.5 | 3.5 |
experiment | 8/30 pSB1C3 (XbaI & Pst) | 12.5 | 8/30 pT181 attenuator (XbaI & PstI) | 25 | 3.5 |
experiment | 8/30 pSB1C3 (XbaI & Pst) | 12.5 | 8/30 pT181 antisense (XbaI & PstI) | 25 | 3.5 |
experiment | 8/20 DT (EcoRI & XbaI) | 6.6 | 8/30 pT181 attenuator(2) (EcoRI & SpeI) | 12.5 | 3.5 |
experiment | 8/20 DT (EcoRI & XbaI) | 6.6 | 8/30 pT181 antisense (EcoRI & SpeI) | 12.5 | 3.5 |
experiment | 8/27 DT (EcoRI & XbaI) | 3.0 | 8/30 tRNA-Spinach (EcoRI & SpeI) | 12.5 | 3.5 |
experiment | 8/20 DT (EcoRI & XbaI) | 6.6 | 8/30 RBS-lysis2 (EcoRI & SpeI) | 12.5 | 3.5 |
experiment | 8/22 J23100 (SpeI & PstI) | -- | RBS-tetR-DT (XbaI & PstI) | -- | 3.5 |
experiment | 8/22 Plac (SpeI & PstI) | 8.0 | 8/18 RBS-lacZα-DT (XbaI & PstI) | 10 | 3.5 |
Samples were evaporeted used evaporator into about 7 µL
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
8/30 Plux-RBS-GFP-DT-(1) | 124 | 1.77 | 1.87 |
8/30 Plux-RBS-GFP-DT-(2) | 213 | 1.75 | 1.52 |
8/30 Pbad/araC-RBS-RFP | 427 | 1.70 | 1.56 |
8/30 Pbad/araC-RBS-RFP | 670 | 1.30 | 0.83 |
8/30 Pcon-RBS-GFP-DT-Pcon-RBS-luxR-DT-(1) | 332 | 1.73 | 2.04 |
8/30 Pcon-RBS-GFP-DT-Pcon-RBS-luxR-DT-(2) | 478 | 1.74 | 2.09 |
8/30 Pcon-RBS-GFP-DT-Pcon-RBS-luxR-DT-(3) | 146 | 1.77 | 2.11 |
8/30 Pcon-RBS-GFP-DT-Pcon-RBS-luxR-DT-(4) | 454 | 1.75 | 2.19 |
Sep 1
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
8/31 tRNA-Spinach(pSB1C3) | 2µL | 20µL | 22µL | CP |
8/31 pT181 antisense(pSB1C3) | 2µL | 20µL | 22µL | CP |
8/31 pT181 attenuator(pSB1C3) | 2µL | 20µL | 22µL | CP |
8/31 pT181 antisense(pSB1C3) | 2µL | 20µL | 22µL | CP |
8/31 pT181 attenuator(2)-DT | 2µL | 20µL | 22µL | CP |
8/31 pT181 antisense-DT | 2µL | 20µL | 22µL | CP |
8/31 tRNA-Spniach-DT | 2µL | 20µL | 22µL | CP |
8/31 RBS-lysis2-DT | 2µL | 20µL | 22µL | CP |
8/31 Pconst-RBS-tetR-DT | 2µL | 20µL | 22µL | Amp |
8/31 Plac-RBS-lacZα-DT | 2µL | 20µL | 22µL | CP |
8/31 Ptet-RBS-lacZα-DT | 2µL | 20µL | 22µL | CP |
8/31 | 2µL | 20µL | 22µL | CP |
ligation production PCR
Sample | base pair |
---|---|
8/31 tRNA Spinach(pSB1C3) | 459 |
8/31 pT181 antisense(2)(pSB1C3)(EcoRI+SpeI) | 415 |
8/31 pT181 attenuator(2)(pSB1C3)(XbaI+PstI) | 601 |
8/31 pT181 antisense(2)(pSB1C3)(XbaI+PstI) | 415 |
8/31 pT181 attenuator(2)-DT | 754 |
8/31 pT181 antisense(2)-DT | 577 |
8/31 tRNA Spinach-DT | 596 |
8/22 pSB1C3(2)(controll) | 1383 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 30min | 30cycle |
Ligation
state | Vector | Inserter | ||
---|---|---|---|---|
experiment | DT(EcoRI+SpeI) | 5.5 | 8/28 RBS-lysis1(EcoRI+SpeI)2.4ng/µL | 2.4 |
1. Samples were evaporeted used evaporator into about 7 µL.
2. Add Ligation High 3.5µ:L and incubate 16°C 1hour.
Liquid Culture
Sample | medium |
---|---|
8/21 pSB1C3(BBa_J04450)-(1) | Plusgrow medium(+CP) |
8/21 pSB1C3(BBa_J04450)-(2) | Plusgrow medium(+CP) |
RBS-lysis3-DT | Plusgrow medium(+CP) |
M9 Medium
5xM9 liquid medium
volume | 100mL |
---|---|
NaHPO4 | 30g |
KH2PO | 3g |
Nacl | 0.25g |
NH4Cl | 0.5g |
3.75% agar solution | 400mL |
1M MgSO4 | 0.5mL |
2M Glucose | 2.8mL |
1% Vitamin B1 | 0.5mL |
1M CaCl2 | 0.05mL |
1. mix 5xM9 medium and 3.75%Agar solution 400mL
2. Add 1M MgSO4, 2M Glucose and 1 VitaminB1 0.5mL
3. Add CaCl2 while shaking Erlenmeyer flask.
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
8/21 pSB1C3(1) | 309.2 | 1.69 | 1.72 |
8/21 pSB1C3(2) | 201.6 | 1.65 | 1.76 |
Kanamycin applicaton
Add 20µL Kanamycin into 80µL MilliQ and apply it on a 9/1 M9 plate
Plating
Apply entA-colony liquid culture (100µL) on M9(Km)plate and incubate 37°C
2 fold diluted OD 600 2.107
Liquid Culture
Sample | medium |
---|---|
9/1 entA- Master Plate-(4) | SOB Medium(+Km) |
Sep 2
Colony PCR
Sample | base pair |
---|---|
9/1 RBS-lysis2-DT-(1) | 985 |
Ptet-RBS-lacZα-DT-(1) | 765 |
Plac-RBS-lacZα-DT-(1) | 765 |
Plac-RBS-lacZα-DT-(2) | 765 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 1min | 30cycles |
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | 9/1 RBS-lysis2+DT -(1) |
3 | 9/1 Ptet+RBS-lacZα-DT -(1) |
4 | 9/1 Plac+RBS-lacZα-DT -(1) |
5 | 9/1 Plac+RBS-lacZα-DT -(2) |
6 | 100bp ladder |
Restriction Enzyme Digestion
pSB1C3-(1) | EcoRI | SpeI | XbaI | PstI | BufferB | BufferD | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|---|
2 cuts(EcoRI+SpeI) | 7µL | 1µL | 1µL | 0µL | 0µL | 3µL | 0µL | 0.3µL | 17.7µL | 30µL |
NC(EcoRI+SpeI) | 0.3µL | 0µL | 0µL | 0µL | 0µL | 1µL | 0µL | 0.1µL | 8.6µL | 10µL |
2 cuts(XbaI+PstI) | 7µL | 0µL | 0µL | 1µL | 1µL | 0µL | 3µL | 0.3µL | 17.7µL | 30µL |
NC(XbaI+PstI) | 0.3µL | 0µL | 0µL | 0µL | 0µL | 0µL | 1µL | 0.1µL | 8.6µL | 10µL |
8/21 tRMA-spinach(1) | EcoRI | SpeI | BufferB | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 8µL | 1.0µL | 1.0µL | 3µL | 0.3µL | 17.6µL | 30µL |
NC | 0.5µL | 0µL | 0µL | 1µL | 0.1µL | 8.4µL | 10µL |
8/21 tetR aptamer12_1R-(1) | EcoRI | SpeI | BufferB | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 6µL | 1.0µL | 1.0µL | 3µL | 0.3µL | 18.7µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 1µL | 0.1µL | 8.5µL | 10µL |
8/21 pT181 attenuator-(2) | EcoRI | SpeI | XbaI | PstI | BufferB | BufferD | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|---|
2 cuts(EcoRI+SpeI) | 8µL | 1µL | 1µL | 0µL | 0µL | 3µL | 0µL | 0.3µL | 16.3µL | 30µL |
NC(EcoRI+SpeI) | 0.5µL | 0µL | 0µL | 0µL | 0µL | 1µL | 0µL | 0.1µL | 8.4µL | 10µL |
2 cuts(XbaI+PstI) | 8µL | 0µL | 0µL | 1µL | 1µL | 0µL | 3µL | 0.3µL | 16.3µL | 30µL |
NC(XbaI+PstI) | 0.5µL | 0µL | 0µL | 0µL | 0µL | 0µL | 1µL | 0.1µL | 8.4µL | 10µL |
Liquid Culture
Sample | medium |
---|---|
tRNA-Spinach-1 | Plusgrow medium(+CP) |
tetR aptamaer12_1R-1 | Plusgrow medium(+CP) |
pT181 attenuator-1 | Plusgrow medium(+CP) |
pT181 antisense-1 | Plusgrow medium(+CP) |
Master Plate
Number | Use LB plate(+CP) |
---|---|
1 | tRNA Spinach-1 |
2 | tetR aptamaer12_1R |
3 | tetR aptamaer12_P |
4 | tetR aptamaer12_1M |
5 | pT181 attenuator-2 |
6 | Fusion1 attenuator-1 |
7 | Fusion3m2 attenuator-1 |
8 | pT181 antisense-1 |
9 | Fusion1 antisense-1 |
10 | Fuaion6 antisense-1 |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | pSB1C3 -(1) | EcoRI | SpeI |
3 | pSB1C3 -(1) | -- | -- |
5 | pSB1C3 -(1) | XbaI | PstI |
6 | pSB1C3 -(1) | -- | -- |
7 | pT181 attenuator (2) | EcoRI | SpeI |
8 | pT181 attenuator (2) | -- | -- |
9 | pT181 attenuator (2) | XbaI | SpeI |
10 | pT181 attenuator (2) | -- | -- |
11 | tetR-aptamer 12_1R | EcoRI | SpeI |
12 | tetR-aptamer 12_1R | -- | -- |
13 | tRNA Spinach (1) | EcoRI | SpeI |
14 | 100bp ladder | -- | -- |
15 | tRNA Spinach (1) | -- | -- |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | - |
2 | pSB1C3(EcoRI+SpeI) | EcoRI&SpeI |
3 | ||
4 | -- | -- |
5 | 8/24 tetR aptamer 12_1R | EcoRI&SpeI |
6 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | - |
2 | pT181 attenuator(2)(EcoRI+SpeI) | EcoRI&SpeI |
3 | ||
4 | -- | -- |
5 | pT181 attenuator(2)(XbaI+PstI) | EcoRI&SpeI |
6 | ||
7 | -- | -- |
8 | pT181 attenuator(2)(XbaI+PstI) | EcoRI&SpeI |
9 | ||
10 | -- | -- |
11 | Spinach | EcoRI&SpaI |
12 |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
pSB1C3 (EcoRI&SpeI) | 3.0 | 2.18 | 0.31 |
pSB1C3 (XbaI&PstI) | 4.7 | 2.25 | 0.36 |
pT181 attenuator-(2)(EcoR&SpeI) | 8.6 | 2.74 | 0.01 |
pT181 attenuator-(2) (XbaI&PstI) | 16.5 | 2.46 | 0.03 |
Spinach (EcoRI&SpeI) | 2.8 | 2.98 | 0.27 |
tetR aptamer12_1R (EcoRI&SpeI) | 50.4 | 28.07 | 1.97 |
Colony PCR
Sample | base pair |
---|---|
9/1 Spinach(pSB1C3) | about 450 |
9/1 Spinach-DT | 596 |
9/1 RBS-lysis1-DT | 613 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 40s | 30cycles |
Sample | base pair |
---|---|
9/1 Ptet-RBS-lacZα-DT-2 | 738 |
9/1 Ptet-RBS-lacZα-DT-3 | 738 |
9/1 Ptet-RBS-lacZα-DT-4 | 738 |
9/1 Ptet-RBS-lacZα-DT-5 | 738 |
9/1 Ptet-RBS-lacZα-DT-6 | 738 |
9/1 RBS-lysis2-DT-2 | 985 |
9/1 RBS-lysis2-DT-3 | 985 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 1min | 30cycles |
Electrophoresis
Master Plate
Number | Use LB plate(+CP) |
---|---|
1 | 9/1 Spinach(pSB1C3) |
2 | 9/1 Spinach-DT-(1) |
Liquid Culture
Sample | medium |
---|---|
pT181 attenuator | Plusgrow medium (+CP) |
pT181 antisense | Plusgrow medium (+CP) |
Spinach | Plusgrow medium (+CP) |
- incubated at 37 °C for 1 hour
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
8/28 RBS-lysis3-DT | 3µL | 30µL | 33µL | CP |
Sep 3
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | pT181 attenuator(2)-DT2(738) |
3 | Ptet-RBS-lacZα-DT-2(756) |
4 | Ptet-RBS-lacZα-DT-3 |
5 | Ptet-RBS-lacZα-DT-4 |
6 | Ptet-RBS-lacZα-DT-5 |
7 | Ptet-RBS-lacZα-DT-6 |
8 | RBS-lysis2-DT-2(985) |
9 | RBS-lysis2-DT-3 |
10 | 100bp ladder |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
9/2 14:00 pT181 attenuator | 418.4 | 1.82 | 1.80 |
9/2 14:00 pT181 antisense | 362.2 | 1.92 | 1.96 |
9/2 14:00 Spinach | 438.3 | 1.86 | 1.99 |
9/2 14:00 tetR-apt 12_1R | 567.5 | 1.90 | 1.99 |
9/2 21:00 pT181 attenuator | 320.9 | 1.90 | 2.15 |
9/2 21:00 Spinach | 457.0 | 1.88 | 2.24 |
Liquid Culture
Sample | medium |
---|---|
Spinach-DT(9/2 master plate) | plusgrow(CP)4ml |
Restriction Enzyme Digestion
DNA | EcoRI | SpeI | XbaI | PstI | 10xBuffer B(EcoRI&SpeI) | 10xBuffer D(XbaI&PstI) | 100xBSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|---|
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 |
DNA | EcoRI | SpeI | XbaI | PstI | 10xBuffer B(EcoRI&SpeI) | 10xBuffer D(XbaI&PstI) | 100xBSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|---|
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 |
DNA | EcoRI | SpeI | 10xBuffer B | 100xBSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
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 |
DNA | EcoRI | XbaI | 10xBuffer D | 100xBSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
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 |
DNA | EcoRI | SpeI | 10xBuffer B | 100xBSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
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 |
DNA | EcoRI | SpeI | 10xBuffer B | 100xBSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
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 |
DNA | EcoRI | SpeI | 10xBuffer B | 100xBSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
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
Plac(1) plasmid 153.7ng/µL | 10x buffer KOD plus-ver.2 | 2mM dNTPs | 25mM MgSO4 | primer (KaiA_BsaI_Mut_fwd) | primer (KaiA_BsaI_Mut_rer) | KOD plus-ver.2 | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.13 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 0.5 | 16.37 | 25 |
KaiB (plasmid) 20.2ng/µL | 10x buffer KOD plus-ver.2 | 2mM dNTPs | 25mM MgSO4 | primer (GG2_RBS_KaiB_fwd) | primer (KaiB_GG3_rer) | KOD plus-ver.2 | MilliQ | total |
---|---|---|---|---|---|---|---|---|
1 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 0.5 | 15.5 | 25 |
KaiC (plasmid) 4.4ng/µL | 10x buffer KOD plus-ver.2 | 2mM dNTPs | 25mM MgSO4 | primer | primer | KOD plus-ver.2 | MilliQ | total |
---|---|---|---|---|---|---|---|---|
1 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 0.5 | 15.5 | 25 |
DT-1 (plasmid) 153.7ng/µL | 10x buffer KOD plus-ver.2 | 2mM dNTPs | 25mM MgSO4 | primer | primer | KOD plus-ver.2 | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.1 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 0.5 | 16.4 | 25 |
PKaiBC(PCR product) 16.3ng/µL | 10x buffer KOD plus-ver.2 | 2mM dNTPs | 25mM MgSO4 | primer | primer | KOD plus-ver.2 | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.7 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 0.5 | 15.8 | 25 |
SasA(PCR product) 21.6ng/µL | 10x buffer KOD plus-ver.2 | 2mM dNTPs | 25mM MgSO4 | primer | primer | KOD plus-ver.2 | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 0.5 | 16 | 25 |
RpaA(PCR product) 15.4ng/µL | 10x buffer KOD plus-ver.2 | 2mM dNTPs | 25mM MgSO4 | primer | primer | KOD plus-ver.2 | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.6 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 0.5 | 15.9 | 25 |
RpaB(PCR product) 26.7ng/µL | 10x buffer KOD plus-ver.2 | 2mM dNTPs | 25mM MgSO4 | primer | primer | KOD plus-ver.2 | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.4 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 0.5 | 16.1 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 68°C | -- | |
5min | 10sec | 30sec | 30 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 68°C | -- | |
5min | 10sec | 30sec | 30 |
Mutatation PCR
KaiABC(12.6pg/µL) | Primer(Kai_BsaIMut_fwd) | Primer(Kai_BsaIMut_rer) | Prime STAR Max Premix | MilliQ | total |
---|---|---|---|---|---|
1 | 1 | 1 | 25 | 22 | 50 |
Primer(Kai_BsaIMut_fwd) | Primer(Kai_BsaIMut_rer) | Prime STAR Max Premix | MilliQ | total | |
---|---|---|---|---|---|
1 | 1 | 25 | 23 | 50 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 65°C | 72°C | -- |
5min | 10sec | 15sec | 40sec | 30 |
Colony PCR
Sample | base pair |
---|---|
9/1 pT181antisense(pSB1C3) | 400bp |
9/1 pT181antisense-DT | 547bp |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5m | 30s | 30s | 30s | 30 |
Electrophoresis
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | attenuator EcoRI&SpeI |
3 | attenuator negative EcoRI&SpeI |
4 | attenuator XbaI&PstI |
5 | attenuator negative XbaI&PstI |
6 | antisense EcoRI&SpeI |
7 | antisense negative EcoRI&SpeI |
8 | 100bp ladder |
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | antisense XbaI&PstI |
3 | antisense negative XbaI&PstI |
4 | apt EcoRI&SpeI |
5 | apt negative EcoRI&SpeI |
6 | DT EcoRI&XbaI |
7 | DT negative EcoRI&XbaI |
8 | 100bp ladder |
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | RBS-lysis1 EcoRI&SpeI |
3 | RBS-lysis1 negative |
4 | RBS-lysis2 EcoRI&SpeI |
5 | RBS-lysis2 negative |
6 | RBS-lysis3 EcoRI&SpeI |
7 | RBS-lysis3 negative |
8 | 100bp ladder |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | |
3 | pT181 attenuator | EcoRI&SpeI |
4 | pT181 attenuator | EcoRI&SpeI |
6 | pT181 attenuator | XbaI&PstI |
7 | pT181 attenuator | XbaI&PstI |
9 | pT181 antisense | EcoRI&SpeI |
10 | pT181 antisense | EcoRI&SpeI |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | |
2 | pT181 antisense | XbaI&PstI |
3 | pT181 antisense | XbaI&PstI |
5 | apt12_1R | EcoRI&SpeI |
6 | apt12_1R | EcoRI&SpeI |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | |
2 | DT | EcoRI&XbaI |
3 | DT | EcoRI&XbaI |
5 | RBS-lysis1 | EcoRI&SpeI |
6 | RBS-lysis1 | EcoRI&SpeI |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | |
2 | RBS-lysis2 | EcoRI&SpeI |
3 | RBS-lysis2 | EcoRI&SpeI |
5 | RBS-lysis3 | EcoRI&SpeI |
6 | RBS-lysis3 | EcoRI&SpeI |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
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
Sample | medium |
---|---|
8/16master plate7(DT) | |
8/21RBS-lysis1 |
Sep 4
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/3 DT(EcoRI&XbaI) | 3.2µL | 9/3 RBS-lysis1 | 2.4µL | 2.7µL |
experiment | 9/3 DT(EcoRI&XbaI) | 3.0µL | 9/3 RBS-lysis2 | 4.7µL | 4.0µL |
experiment | 9/3 DT(EcoRI&XbaI) | 3.0µL | 9/3 RBS-lysis3 | 8.8µL | 4.0µL |
experiment | 9/3 DT(EcoRI&XbaI) | 3.0µL | 9/3 aptamer12_1R(EcoRI&SpeI) | 1.9µL | 2.45µL |
experiment | 9/2 pSB1C3(XbaI&PstI) | 10.6µL | 9/3 pT181attenuator (XbaI& PstI) | 3.2µL | 4.0µL |
experiment | 9/2 pSB1C3(XbaI&PstI) | 9.6µL | 9/3 pT181antisense (XbaI& PstI) | 2.1µL | 4.0µL |
experiment | 9/2 pSB1C3(EcoRI&SpeI) | 16.7µL | 9/3 aptamer12_1R(EcoRI&SpeI) | 2.0µL | 4.0µL |
incubate 16 °C 1 hour
Transformation
Name | Sample | Competent Cells | Plate |
---|---|---|---|
9/4 RBS-lysis1-DT | 2µL | 20µL | Amp |
9/4 RBS-lysis2-DT | 2µL | 20µL | Amp |
9/4 RBS-lysis3-DT | 2µL | 20µL | Amp |
9/4 aptamer12_1R-DT | 2µL | 20µL | Amp |
9/4 pT181attenuator –pSB1C3 | 2µL | 20µL | Amp |
9/4 pT181antisense-pSB1C3 | 2µL | 20µL | Amp |
9/4 aptamer12_1R –pSB1C3 | 2µL | 20µL | Amp |
9/4 pSB4K5(2013plate5 56) | 2µL | 20µL | Amp |
9/3 Mutagenesis product 1(KaiABC) | 2µL | 20µL | Amp |
9/3 Mutagenesis product 2(NC) | 2µL | 20µL | Amp |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
DT | 193.1 | 1.93 | 1.81 |
Spinach-DT | 373.3 | 1.92 | 1.69 |
RBS-lysis1 | 332.0 | 1.95 | 1.62 |
Master Plate
Number | Use LB plate (+CP) |
---|---|
1 | 8/10 Plac(CP)-2 |
2 | 8/10 Plac(CP)-2 |
3 | 8/10 Plac(CP)-2 |
Number | Use LB plate (+Amp) |
---|---|
1 | 8/9 J23100(Amp)-1 |
2 | 8/9 J23100(Amp)-1 |
3 | 8/9 J23100(Amp)-1 |
Liquid Culture
Sample | medium |
---|---|
8/10 Plac(CP)-2 | Plusgrow medium(+CP) |
8/9 J23100(Amp)-1 | Plusgrow medium(+Amp) |
PCR
8/29 Pλ-RBS-luxI-DT | KOD plus | 10x buffer | dNTP | MgSO4 | F primer (RBS-luxI-DT-cloning-fwd) | R primer(RBS-luxI-DT-cloning-rev) | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.3µL | 0.5µL | 2.5µL | 2.5µL | 1.5µL | 0.75µL | 0.75µL | 16.2µL | 25µL |
8/31 Pbad/araC-RBS-RFP(1) | KOD plus | 10x buffer | dNTP | MgSO4 | F primer (Pbad/araC-pSB1C3-cloning-fond) | R primer(Pbad/araC-cloning-rex) | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.3µL | 0.5µL | 2.5µL | 2.5µL | 1.5µL | 0.75µL | 0.75µL | 16.2µL | 25µL |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 65°C | 68°C | -- |
5min | 10s | 30s | 3min10s | 30cycles |
Restriction Enzyme Digestion
8/21 Pconst | SpeI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 10.5µL | 1.0µL | 1.0µL | 3.0µL | 0.3µL | 14.2µL | 30 µL |
NC | 0.5µL | 0µL | 0µ | 1.0µL | 0.1µL | 8.4µL | 10 µL |
8/29 Plac | SpeI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 13.0µL | 1.0µL | 1.0µL | 3.0µL | 0.3µL | 11.7µL | 30 µL |
NC | 0.7µL | 0µL | 0µ | 1.0µL | 0.1µL | 8.2µL | 10 µL |
8/20 Ptet | SpeI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 9.0µL | 1.0µL | 1.0µL | 3.0µL | 0.3µL | 15.7µL | 30 µL |
NC | 0.5µL | 0µL | 0µ | 1.0µL | 0.1µL | 8.4µL | 10 µL |
8/20 RBS-tetR-DT | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 8.5µL | 1.0µL | 1.0µL | 3.0µL | 0.3µL | 16.2µL | 30 µL |
NC | 0.5µL | 0µL | 0µ | 1.0µL | 0.1µL | 8.4µL | 10 µL |
spinach -DT | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 5.4µL | 1.0µL | 1.0µL | 3.0µL | 3.0µL | 16.6µL | 30 µL |
NC | 0.3µL | 0µL | 0µ | 1.0µL | 1.0µL | 7.7µL | 10 µL |
8/17 RBS-lacZα-DT | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 11µL | 1.0µL | 1.0µL | 3.0µL | 3.0µL | 11µL | 30 µL |
NC | 0.5µL | 0µL | 0µ | 1.0µL | 1.0µL | 7.5µL | 10 µL |
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
Ptrc KaiC | 1µL | 10µL | 11µL | Amp |
Ptrc KaiB | 1µL | 10µL | 11µL | Amp |
pSΩ | 1µL | 10µL | 11µL | Amp |
Electrophoresis
1
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | Pconst | SpeI | PstI |
3 | Pconst NC | -- | -- |
4 | Plac | SpeI | PstI |
5 | Plac NC | -- | -- |
6 | 100bp ladder | -- | -- |
2
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | Ptet | SpeI | PstI |
3 | Ptet NC | -- | -- |
4 | RBS-tetR-DT | XbaI | PstI |
5 | RBS-tetR-DT NC | -- | -- |
6 | 100bp ladder | -- | -- |
3
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | Spinach-DT | XbaI | PstI |
3 | Spinach-DT NC | -- | -- |
4 | RBS-lacZα-DT | XbaI | PstI |
5 | RBS-lacα-DT NC | -- | -- |
6 | 100bp ladder | -- | -- |
Gel Extraction
1
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | Pcon | SpeI&PstI |
3 | Pcon | SpeI&PstI |
4 | -- | -- |
5 | Plac | SpeI&PstI |
6 | Plac | SpeI&PstI |
2
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | Ptet | SpeI&PstI |
3 | Ptet | SpeI&PstI |
4 | -- | -- |
5 | RBS-tetR-DT | XbaI&PstI |
6 | RBS-tetR-DT | XbaI&PstI |
Name | quantity | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|---|
Pcon | -- | 13.2 | 1.99 | -1.64 |
Plac | -- | 15.3 | 2.07 | -0.39 |
Ptet | -- | 30.1 | 1.97 | -0.97 |
RBS-tetR-DT | -- | 3.0 | 2.44 | 0.88 |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | spinach-DT | XbaI&PstI |
3 | spinach-DT | XbaI&PstI |
4 | -- | -- |
5 | RBS-lacZα-DT | XbaI&PstI |
6 | RBS-lacZα-DT | XbaI&PstI |
Name | quantity | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|---|
spinach-DT | -- | 2.1 | 2.10 | -0.05 |
RBS-lacZα-DT | -- | 3.3 | 2.59 | -0.07 |
Master Plate
Number | Use LB plate (+Amp) |
---|---|
4 | 8/9 BBa_J23100-3 |
5 | 8/9 BBa_J23100-4 |
6 | 8/9 BBa_J23100-5 |
Number | Use LB plate |
---|---|
1 | JM109-1 |
2 | JM109-2 |
3 | JM109-3 |
4 | JM109-4 |
Liquid Culture
Sample | medium |
---|---|
8/9 BBa_J23100-3 | Plusgrow medium(+Amp) |
JM109-1(Master plate) | LB medium |
Colony PCR
Sample | base pair |
---|---|
8/9 BBa_J23100 3 | -- |
8/9 BBa_J23100 4 | -- |
8/9 BBa_J23100 5 | -- |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 30s | 30cycles |
Sep 5
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | J23100-3 | -- | -- |
3 | J23100-4 | -- | -- |
4 | J23100-5 | -- | -- |
5 | 100bp ladder | -- | -- |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
8/3 J23100-3 | 349.1 | 1.69 | 1.851 |
8/10 Plac-2 | 331.3 | 1.84 | 1.42 |
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | Pconst | 13.2 | spinach-DT | 2.1 | 3.5 |
experiment | Plac | 15.3 | spinach-DT | 2.1 | 3.5 |
experiment | Pconst | 13.2 | pT181 antisense (XbaI & PstI) | 6.6 | 3.5 |
experiment | Plac | 15.3 | pT181 antisense (XbaI & PstI) | 6.6 | 3.5 |
experiment | Ptet | 30.1 | pT181 antisense (XbaI & PstI) | 6.6 | 3.5 |
experiment | Pconst | 13.2 | pT181 attenuator | 11.7 | 3.5 |
experiment | Plac | 15.3 | pT181 attenuator | 11.7 | 3.5 |
experiment | Ptet | 30.1 | RBS-lacZα-DT | 3.0 | 3.5 |
incubate 16 °C 1 hour
Electrophoresis
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | |
2 | RBS-luxI-DT | |
3 | RBS-luxI-DT | |
4 | ||
5 | Pbad/araC | |
6 | Pbad/araC |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
RBS-luxI-DT | 23.2 | 0.83 | 7.89 |
Pbad/araC | 51.8 | 1.20 | 0.11 |
Colony PCR
Sample | base pair |
---|---|
9/4 aptamer 12_1R(pSB1C3)-1 | 384 |
9/4 aptamer 12_1R(pSB1C3)-2 | 384 |
9/4 pT181 antisense(pSB1C3)-1 | 415 |
9/4 pT181 antisense(pSB1C3)-2 | 415 |
9/4 pT181 antisense(pSB1C3)-3 | 415 |
9/4 pT181 antisense(pSB1C3)-4 | 415 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 30s | 30cycles |
Sample | base pair |
---|---|
9/4 aptamer 12_1R-DT-1 | 521 |
9/4 aptamer 12_1R-DT-2 | 521 |
9/4 aptamer 12_1R-DT-3 | 521 |
9/4 aptamer 12_1R-DT-4 | 521 |
9/4 pT181 attenuator(pSB1C3) | 601 |
9/4 pT181 attenuator(pSB1C3) | 601 |
9/4 RBS-lysis1-DT | 613 |
9/4 RBS-lysis1-DT | 613 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 36s | 30cycles |
Sample | base pair |
---|---|
9/4 RBS-lysis2-DT-1 | 985 |
9/4 RBS-lysis2-DT-2 | 985 |
9/4 RBS-lysis2-DT-3 | 985 |
9/4 RBS-lysis2-DT-4 | 985 |
9/4 RBS-lysis3-DT-1 | 1210 |
9/4 RBS-lysis3-DT-2 | 1210 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 72s | 30cycles |
Liquid Culture
Sample | medium |
---|---|
8/9 J23100-5 | Plusgrow medium(+Amp) |
37°C
Transformation
Name | Sample(µL) | Competent Cells(µL) | Total(µL) | Plate |
---|---|---|---|---|
9/5 Pconst+spinach-DT | 2 | 20 | 22 | -- |
9/5 Plac+spinach-DT | 2 | 20 | 22 | -- |
9/5 Pconst+pT181 antisense | 2 | 20 | 22 | -- |
9/5 Plac+pT181 antisense | 2 | 20 | 22 | -- |
9/5 Ptet+pT181 antisense | 2 | 20 | 22 | -- |
9/5 Plux+pT181 attenuator | 2 | 20 | 22 | -- |
9/5 Ptet+pT181 attenuator | 2 | 20 | 22 | -- |
9/5 Ptet+pT181 attenuator | 2 | 20 | 22 | -- |
9/5 Pconst+RBS-tetR+DT | 2 | 20 | 22 | -- |
9/16(2012) T7-His-FT | 2 | 20 | 22 | -- |
9/16(2012) pBr322 | 2 | 20 | 22 | -- |
Restriction Enzyme Digestion
9/5 Pbad/araC | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 4µL | 0µL | 1µL | 0µL | 1µL | 3µL | 3µL | 18µL | 30µL |
9/5 RBS-luxI-DT | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 4µL | 0µL | 0µL | 1µL | 1µL | 3µL | 3µL | 18µL | 30µL |
8/28 Plux | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 12µL | 0µL | 1µL | 0µL | 1µL | 3µL | 3µL | 10µL | 30µL |
NC | 0.6µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.4µL | 10µL |
9/5 Pconst(J23100) | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 5.7µL | 0µL | 1µL | 0µL | 1µL | 3µL | 3µL | 16.3µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.7µL | 10µL |
9/5 Plac | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 6.0µL | 0µL | 1µL | 0µL | 1µL | 3µL | 3µL | 16µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.7µL | 10µL |
8/31 Plux-RBS-GFP-DT-1 | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 9.4µL | 1µL | 1µL | 0µL | 0µL | 3µL | 3µL | 12.6µL | 30µL |
NC | 0.5µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.5µL | 10µL |
8/20 Pconst-RBS-luxR-DT | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 4.5µL | 1µL | 0µL | 1µL | 0µL | 3µL | 3µL | 13.5µL | 30µL |
NC | 0.2µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.8µL | 10µL |
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
9/5 RBS-luxI-DT | 7.6 | 1.56 | -1.42 |
9/5 Pbad/araC | 7.5 | 1.54 | 3.84 |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | aptamer 12_1R (pSB1C3)-1 | -- | -- |
3 | aptamer 12_1R (pSB1C3)-2 | -- | -- |
4 | pT181 antisense(pSB1C3)-1 | -- | -- |
5 | pT181 antisense(pSB1C3)-2 | -- | -- |
6 | pT181 antisense(pSB1C3)-3 | -- | -- |
7 | pT181 antisense(pSB1C3)-4 | -- | -- |
8 | 100bp ladder | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | aptamer 12_1R-DT-1 | -- | -- |
3 | aptamer 12_1R-DT-2 | -- | -- |
4 | aptamer 12_1R-DT-3 | -- | -- |
5 | aptamer 12_1R-DT-4 | -- | -- |
6 | pT181 attenuator(pSB1C3)-1 | -- | -- |
7 | pT181 attenuator(pSB1C3)-2 | -- | -- |
8 | RBS-lysis1-DT-1 | -- | -- |
9 | RBS-lysis1-DT-2 | -- | -- |
10 | 100bp ladder | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | RBS-lysis2-DT-1 | -- | -- |
3 | RBS-lysis2-DT-2 | -- | -- |
4 | RBS-lysis2-DT-3 | -- | -- |
5 | RBS-lysis2-DT-4 | -- | -- |
6 | RBS-lysis3-DT-1 | -- | -- |
7 | RBS-lysis3-DT-2 | -- | -- |
8 | 100bp ladder | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 1kbp ladder | -- | -- |
2 | Pconst | SpeI | PstI |
3 | Pconst NC | -- | -- |
4 | Plac | SpeI | PstI |
5 | Plac NC | -- | -- |
6 | Plux | SpeI | PstI |
7 | Plux NC | -- | -- |
8 | Pconst-RBS-luxR-DT | EcoRI | XbaI |
9 | Pconst-RBS-luxR-DT NC | -- | -- |
10 | Plux-RBS-GFP-DT | EcoRI | SpeI |
11 | Plux-RBS-GFP-DT NC | -- | -- |
12 | 1kbp ladder | -- | -- |
5x M9 Medium (+EDTA)
volume | 10ml |
---|---|
Na2HPO4 | 60mg |
KH2PO4 | 30mg |
NaCl | 5mg |
NH4Cl | 10mg |
Fe(III)-EDTA | 1263.27mg |
MilliQ | up to 10 mL |
- autoclave at 121 °C for 20 min
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | |
2 | Pconst | SpeI & PstI |
3 | Pconst | SpeI & PstI |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Pconst | 5.3 | 1.98 | 0.06 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | |
2 | Plac | SpeI & PstI |
3 | Plac | SpeI & PstI |
5 | Plux | SpeI & PstI |
6 | Plux | SpeI & PstI |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Plac (SpeI & PstI) | 5.2 | 1.82 | 0.36 |
Plux(SpeI & PstI) | 8.0 | 1.87 | 0.25 |
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | |
2 | Pconst-RBS-luxR-DT | EcoRI & XbaI |
3 | Pconst-RBS-luxR-DT | EcoRI & XbaI |
5 | Plux-RBS-GFP-DT | EcoRI & SpeI |
6 | Plux-RBS-GFP-DT | EcoRI & SpeI |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Pconst-RBS-luxR-DT(EcoRI & XbaI) | 30.6 | 1.84 | 1.16 |
Plux-RBS-GFP-DT (EcoRI & SpeI) | 21.8 | 1.87 | 0.98 |
DNA Purification
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
9/5 RBS-luxI-DT | 7.6 | 1.56 | -1.42 |
9/5 Pbad/araC | 7.5 | 1.54 | 3.84 |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
8/9 J23100-5 | 243.0 | 1.90 | 1.81 |
Colony PCR
Sample | base pair |
---|---|
9/4 RBS-lysis3-DT-3 | 1210 |
9/4 RBS-lysis3-DT-4 | 1210 |
9/4 RBS-lysis3-DT-5 | 1210 |
9/4 RBS-lysis1-DT-3 | 613 |
9/4 Ptrc KaiC-1 | -- |
9/4 pSB4K5 | 1370 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 1min 25s | 30cycles |
Liquid Culture
Sample | medium |
---|---|
9/4 aptamer 12_1R-DT-1 | Plusgrow medium (+CP) |
9/4 pT181 attenuator(pSB1C3)-1 | Plusgrow medium (+CP) |
9/4 RBS-lysis2-DT-1 | Plusgrow medium (+CP) |
9/4 Ptrc-KaiC -1 | Plusgrow medium (+Amp) |
9/4 pSB4K5 -1 | Plusgrow medium (+Kan) |
Sep 6
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | 9/4 RBS-lysis3-DT -3 |
3 | 9/4 RBS-lysis3-DT -4 |
4 | 9/4 RBS-lysis3-DT -5 |
5 | 9/4 RBS-lysis1-DT -3 |
6 | 9/4 Ptrc-KaiC -1 |
7 | 9/4 pSB4K5 -1 |
8 | 100bp ladder |
Colony PCR
Sample | base pair |
---|---|
Pconst-spinach-DT-(1~4) | 563 |
Plac-spinach-DT-(1~4) | 659 |
Pcon-pT181 antisense-(1~4) | 468 |
Ptet-pT181 antisense-(1~4) | 604 |
Pconst-pT181 attenuator-(1~4) | 568 |
Pconst+RBS-tetR-DT-(1~4) | 1121 |
Ptet+RBS-lacZα-DT-(1~4) | 1162 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 40s | 30cycles |
Liquid Culture
Sample | medium |
---|---|
9/4 RBS-Lysis3+DT3 | Plusgrow medium(+CP) |
9/4 RBS-Lysis1+DT3 | Plusgrow medium(+CP) |
9/4 pSB4K5 | Plusgrow medium(+Kan) |
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | Pconst-spinach-DT -(1) |
3 | Pconst-spinach-DT -(2) |
4 | Pconst-spinach-DT -(3) |
5 | Pconst-spinach-DT -(4) |
6 | Plac-spinach-DT -(1) |
7 | Plac-spinach-DT -(2) |
8 | Plac-spinach-DT -(3) |
9 | Plac-spinach-DT -(4) |
10 | Pcon-pT181 antisense -(1) |
11 | Pcon-pT181 antisense -(2) |
12 | Pcon-pT181 antisense -(3) |
13 | Pcon-pT181 antisense -(4) |
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | Ptet-pT181 antisense -(1) |
3 | Ptet-pT181 antisense -(2) |
4 | Ptet-pT181 antisense -(3) |
5 | Ptet-pT181 antisense -(4) |
6 | Plac-pT181 attenuator -(1) |
7 | Plac-pT181 attenuator -(2) |
8 | Plac-pT181 attenuator -(3) |
9 | Plac-pT181 attenuator -(4) |
Miniprep
DNA | concentration [µg/mL] | 260/280 | 260/230 |
---|---|---|---|
pT181 antisense-(1) | 238.7 | 1.68 | 1.44 |
pT181 antisense-(2) | 248.8 | 1.83 | 1.77 |
pT181 antisense-(3) | 223.2 | 1.78 | 1.61 |
pT181 antisense-(4) | 220.8 | 1.89 | 1.92 |
tetR aptamer-(1) | 252.5 | 1.89 | 1.90 |
tetR aptamer-(2) | 211.2 | 1.90 | 1.99 |
DT181 attenuator | 102.2 | 1.98 | 2.17 |
121R aptamer-DT | 251.7 | 1.92 | 2.01 |
pSB4K5 | 212.9 | 1.80 | 1.90 |
RBS-lacZα-DT | 185.7 | 1.78 | 1.79 |
RBS-lysis2-DT-(1) | 84.8 | 1.85 | 2.24 |
Restriction Enzyme Digestion
9/6 RBS-lysis2-DT (78.3 µg/mL) | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 22 µL | 1 µL | 1 µL | 3 µL | 3 µL | 0 µL | 30 µL |
NC | 1.3 µL | 0 µL | 0 µL | 1 µL | 1 µL | 6.7 µL | 10 µL |
aptamer-DT (251.7 µg/mL) | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 0.4 µL | 1 µL | 1 µL | 3 µL | 3 µL | 14.1 µL | 30 µL |
NC | 0.4 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.6 µL | 10 µL |
Pλ-luxI (86.4 µg/mL) | EcoRI | SpeI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 23.1 µL | 1 µL | 1 µL | 3 µL | 3 µL | 1.9 µL | 30 µL |
NC | 1.2 µL | 0 µL | 0 µL | 1 µL | 1 µL | 6.8 µL | 10 µL |
- at 37 °C, for 1h
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | Pconst+RBS-tetR-DT -(1) |
3 | Pconst+RBS-tetR-DT -(2) |
4 | Pconst+RBS-tetR-DT -(3) |
5 | Pconst+RBS-tetR-DT -(4) |
6 | Ptet+RBS-lacZα-DT -(1) |
7 | Ptet+RBS-lacZα-DT -(2) |
8 | 100bp ladder |
9 | Ptet+RBS-lacZα-DT -(3) |
10 | Ptet+RBS-lacZα-DT -(4) |
11 | 100bp ladder |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | RBS-lysis2-DT | XbaI & PstI |
3 | ||
4 | -- | -- |
5 | aptamer 12_1R-DT | XbaI & PstI |
6 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | Pλ-luxI | EcoRI & SpeI |
3 |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
RBS-lysis2-DT (XbaI & PstI) | 7.1 | 1.88 | 0.07 |
aptamer 12_1R-DT (XbaI & PstI) | 15.3 | 1.93 | 0.70 |
Pλ-luxI (EcoRI & SpeI) | 4.5 | 1.79 | 0.31 |
Liquid Culture
Sample | medium |
---|---|
9/5 Pconst-spinach-DT-(1) | Plusgrow medium(+Amp&CP) |
9/5 Ptet-pT181 antisense-(1) | Plusgrow medium(+CP) |
9/5 Pconst+RBS-tetR-DT-(1) | Plusgrow medium(+Amp&CP) |
9/5 Ptet+RBS-lacZα-DT-(1) | Plusgrow medium(+CP) |
9/5 Pcon-pT181 attenuator-(1) | Plusgrow medium(+CP) |
9/4 pT181 antisense-(1) | Plusgrow medium(+CP) |
9/4 aptamer 12_1R-(1) | Plusgrow medium(+CP) |
Colony PCR
Sample | base pair |
---|---|
9/5 Plac-spinach-DT-(5~12) | 563 |
9/5 Pcon-antisense-(5~12) | 468 |
9/5 Plac-attenuator-(5~12) | 664 |
9/5 pT181 antisense+Plac-(1) | - |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 42s | 30cycles |
Sep 7
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
RBS-lysis1-DT | 195.3 | ||
RBS-lysis3-DT | 255.5 | 1.91 | 2.04 |
Ptet-pT18 | 183.6 | 1.85 | 1.48 |
Pcon-RBS-tetR-DT | 134.3 | 1.94 | 2.20 |
Ptet-RBS-lacZα-DT | 67.7 | 1.92 | 1.79 |
Pcon-pT181 attenuator | 232.3 | 1.95 | 1.90 |
pSB4K5 | 237.0 | 1.61 | 1.50 |
pT181 antisense(pSB1C3) | 256.4 | 1.63 | 1.78 |
apt12_1R(pSB1C3) | 230.0 | 1.98 | 2.28 |
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | Plac-Spinach-DT -5 |
3 | Plac-Spinach-DT -6 |
4 | Plac-Spinach-DT -7 |
5 | Plac-Spinach-DT -8 |
6 | Plac-Spinach-DT -9 |
7 | Plac-Spinach-DT -10 |
8 | 100bp ladder |
1 | 100bp ladder |
2 | Plac-Spinach-DT -11 |
3 | Plac-Spinach-DT -12 |
4 | Pcon-antisense -5 |
5 | Pcon-antisense -6 |
6 | Pcon-antisense -7 |
7 | Pcon-antisense -8 |
8 | 100bp ladder |
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | Pcon-antisense -9 |
3 | Pcon-antisense -10 |
4 | Pcon-antisense -11 |
5 | Pcon-antisense -12 |
6 | Plac-attenuator -5 |
7 | Plac-attenuator -6 |
8 | 100bp ladder |
1 | 100bp ladder |
2 | Plac-attenuator -7 |
3 | Plac-attenuator -8 |
4 | Plac-attenuator -9 |
5 | Plac-attenuator -10 |
6 | Plac-attenuator -11 |
7 | Plac-attenuator -12 |
8 | 100bp ladder |
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | Plac-pT181 antisense |
Colony PCR
Sample |
---|
Plac-spinach-DT -13~20 |
Plac-pT181 attenuator -13~20 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94 °C | 94 °C | 55 °C | 68°C | -- |
5 min | 30 s | 30 s | 42 sec | 30 cycles |
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/6 Plux (SpeI&PstI) | 2 µL | 9/7 RBS-lysis2-DT (EcoRI&XbaI) | µL | 3.5 µL |
experiment | 9/6 Plac (SpeI&PstI) | µL | 9/7 RBS-lysis2-DT (EcoRI&XbaI) | µL | 3.5 µL |
experiment | 9/6 Pcon-RBS-luxR-DT (EcoRI&XbaI) | 1.9 µL | 9/6 Plux-RBS-GFP-DT(SpeI&PstI) | 2.2 µL | 3.5 µL |
experiment | 9/6 Pbed/araC (SpeI&PstI) | 1.6 µL | 9/5 RBS-luxI-DT (EcoRI&XbaI) | 16 µL | 3.5 µL |
experiment | 9/6 Plac (SpeI&PstI) | 1.5 µL | 9/5 pT181 antisense (EcoRI&XbaI) | 2.0 µL | 3.5 µL |
experiment | 9/6 Pcon (SpeI&PstI) | 3.0 µL | 9/5 RBS-luxI-DT (EcoRI&XbaI) | 10 µL | 3.5 µL |
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | Plac-Spinach-DT -13 |
3 | Plac-Spinach-DT -14 |
4 | Plac-Spinach-DT -15 |
5 | Plac-Spinach-DT -16 |
6 | Plac-Spinach-DT -17 |
7 | Plac-Spinach-DT -18 |
8 | Plac-Spinach-DT -19 |
9 | Plac-Spinach-DT -20 |
10 | Plac-pT181 attenuator -13 |
11 | Plac-pT181 attenuator -14 |
12 | 100bp ladder |
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | Plac-pT181 attenuator -15 |
3 | Plac-pT181 attenuator -16 |
4 | Plac-pT181 attenuator -17 |
5 | Plac-pT181 attenuator -18 |
6 | Plac-pT181 attenuator -19 |
7 | Plac-pT181 attenuator -20 |
8 | 100bp ladder |
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
Pcon-RBS-luxR-DT+Plux-RBS-GFP-DT | 2µL | 20µL | 22µL | |
Pbed/araC+RBS-luxI-DT | 2µL | 20µL | 22µL | |
Plac+pT181 antisense | 2µL | 20µL | 22µL | |
Pcon+RBS-luxI-DT | 2µL | 20µL | 22µL |
Restriction Enzyme Digestion
DNA | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
9/7 RBS-lysis1-DT(XbaI & PstI) | 10 µL | 1 µL | 1 µL | 3 µL | 3 µL | 12 µL | 30 µL |
NC | 0.5 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.5 µL | 10 µL |
DNA | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
9/7 RBS-lysis3-DT (XbaI & PstI) | 7.8 µL | 1 µL | 1 µL | 3 µL | 3 µL | 14.2 µL | 30 µL |
NC | 0.4 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.6 µL | 10 µL |
DNA | SpeI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
9/5 Plac (SpeI & PstI) | 6.0 µL | 1 µL | 1 µL | 3 µL | 3 µL | 16.0 µL | 30 µL |
NC | 0.3 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.7 µL | 10 µL |
DNA | EcorI | SpeI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
9/7 pSB4K5 (EcoRI & SpeI) | 8.4 µL | 1 µL | 1 µL | 3 µL | 3 µL | 16.0 µL | 30 µL |
NC | 0.4 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.7 µL | 10 µL |
DNA | restricion enzyme | restriction enzyme | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
Pcon-pT181 attenuator (SpeI & PstI) | 8.6 µL | 1 µL | 1 µL | 3 µL | 3 µL | 13.4 µL | 30 µL |
Pcon-pT181 attenuator (EcorI & SpeI) | 8.6 µL | 1 µL | 1 µL | 3 µL | 3 µL | 13.4 µL | 30 µL |
NC | 0.4 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.6 µL | 10 µL |
DNA | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
9/5 Spinach-DT (XbaI & PstI) | 5.4 µL | 1 µL | 1 µL | 3 µL | 3 µL | 16.6 µL | 30 µL |
NC | 0.3 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.7 µL | 10 µL |
DNA | SpeI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
Ptet-anticodone (SpeI & PstI) | 11 µL | 1 µL | 1 µL | 3 µL | 3 µL | 11 µL | 30 µL |
NC | 0.5 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.5 µL | 10 µL |
DNA | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
9/6 RBS-lacZα-DT (XbaI & PstI) | 11 µL | 1 µL | 1 µL | 3 µL | 3 µL | 11 µL | 30 µL |
NC | 0.5 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.5 µL | 10 µL |
DNA | EcoRI | SpeI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
pSB1C3 (1) (EcoRI & SpeI) | 6.6 µL | 1 µL | 1 µL | 3 µL | 3 µL | 15.4 µL | 30 µL |
NC | 0.3 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.7 µL | 10 µL |
DNA | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
pSB1C3 (3) (XbaI & PstI) | 6.6 µL | 1 µL | 1 µL | 3 µL | 3 µL | 15.4 µL | 30 µL |
NC | 0.3 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.7 µL | 10 µL |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | RBS-lysis1-DT (9/7) | XbaI | PstI |
3 | RBS-lysis1-DT (9/7) | -- | -- |
4 | RBS-lysis3-DT (9/7) | XbaI | PstI |
5 | RBS-lysis3-DT (9/7) | -- | -- |
6 | Pcon-pT181 attenuator | EcoRI | SpeI |
7 | Pcon-pT181 attenuator | -- | -- |
8 | 9/5 Spinach-DT | XbaI | PstI |
9 | 9/5 Spinach-DT | -- | -- |
10 | 100bp ladder | -- | -- |
11 | 100bp ladder | -- | -- |
12 | RBS-lacZα-DT | XbaI | PstI |
13 | RBS-lacZα-DT | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | Ptet-antisense | SpeI | PstI |
3 | Plac (NC) | -- | -- |
4 | pSB4K5 | EcoRI | SpeI |
5 | pSB4K5 | -- | -- |
6 | Pcon-pT181 attenuator | SpeI | PstI |
7 | 1kbp ladder | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | Plac | SpeI | PstI |
3 | Ptet-antisense | -- | -- |
4 | pSB1C3 | EcoRI | SpeI |
5 | pSB1C3 | -- | -- |
6 | pSB1C3 | XbaI | PstI |
7 | pSB1C3 | -- | -- |
8 | 1kbp ladder | -- | -- |
Liquid Culture
Sample | medium |
---|---|
entA- strain | SOB medium (+Kan) |
9/15 Pcon-pT181 antisense | Plusgrow (+Amp) |
Sep 8
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | |
2 | RBS-lysis1-DT | XbaI & PstI |
3 | RBS-lysis1-DT | XbaI & PstI |
5 | RBS-lysis3-DT | XbaI & PstI |
6 | RBS-lysis3-DT | XbaI & PstI |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
RBS-lysis1-DT (XbaI & PstI) | 5.3 | 1.98 | 0.06 |
RBS-lysis3-DT (XbaI & PstI) | 5.3 | 1.98 | 0.06 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | |
3 | Pcon-pT181 attenuator | EcoRI & SpeI |
4 | Pcon-pT181 attenuator | EcoRI & SpeI |
6 | Spinach-DT | XbaI & PstI |
7 | Spinach-DT | XbaI & PstI |
9 | RBS-lacZα-DT | XbaI & PstI |
10 | RBS-lacZα-DT | XbaI & PstI |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Pcon-pT181 attenuator (EcoRI & SpeI) | 5.2 | 1.82 | 0.36 |
Spinach-DT (XbaI & PstI) | 8.0 | 1.87 | 0.25 |
RBS-lacZα-DT (XbaI & PstI) | 10.3 | 1.71 | 0.54 |
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | |
2 | Ptet-pT181 antisense | EcoRI & PstI |
3 | Ptet-pT181 antisense | EcoRI & PstI |
5 | pSB4K5 | EcoRI & SpeI |
6 | pSB4K5 | EcoRI & SpeI |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Ptet-pT181 antisense(EcoRI & PstI) | 30.6 | 1.84 | 1.16 |
pSB4K5 (EcoRI & SpeI) | 21.8 | 1.87 | 0.98 |
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | |
2 | Pcon-pT181 attenuator | SpeI & PstI |
3 | Pcon-pT181 attenuator | SpeI & PstI |
5 | Plac | SpeI & PstI |
6 | Plac | SpeI & PstI |
8 | pSB1C3 | EcoRI & SpeI |
9 | pSB1C3 | EcoRI & SpeI |
11 | pSB1C3 | XbaI & PstI |
12 | pSB1C3 | XbaI & PstI |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Pcon-pT181 attenuator (SpeI & PstI) | 14.5 | 1.91 | 1.09 |
Plac (SpeI & PstI) | 11.6 | 1.74 | 1.19 |
pSB1C3 (EcoRI & SpeI) | 5.7 | 1.74 | 0.34 |
pSB1C3 (XbaI & PstI) | 5.6 | 2.00 | 0.37 |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Pcon-pT181 anti | 243.0 | 1.90 | 1.81 |
Pcon-Spinach-DT | 253.7 | 1.57 | 1.51 |
Ligation
state | Vector(µL) | Inserter(µL) | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/8 Plac SpeI+PstI | 4.3 | 9/3 pT181 attenuator | 3.1 | 3.5 |
experiment | 9/8 Plac SpeI+PstI | 4.3 | 9/7 aptamer12-1R-DT XbaI+PstI | 2.1 | 3.2 |
experiment | 9/8 Plac SpeI+PstI | 4.3 | 9/8 spinach-DT XbaI+PstI | 4.6 | 3.5 |
experiment | 9/6 Plac SpeI+PstI | 2 | 9/7 RBS-lysis2-DT XbaI+PstI | 10 | 3.5 |
experiment | 9/8 Plac SpeI+PstI | 4.3 | 9/7 RBS-lysis2-DT XbaI+PstI | 10 | 3.5 |
experiment | 9/8 Ptet-pT181 anti | 1.6 | 9/8 spinach-DT XbaI+PstI | 4.3 | 3.0 |
experiment | 9/6 Pcon SpeI+PstI | 1.4 | 9/8 RBS-laczα-DT XbaI+PstI | 4.8 | 3.1 |
experiment | 9/8 Pcon-pT181 attenuator SpeI+PstI | 3.4 | 9/7 aptamer12-1R-DT XbaI+PstI | 1.9 | 2.7 |
experiment | 9/6 Pcon SpeI+PstI | 1.4 | 9/7 aptamer12-1R-DT XbaI+PstI | 2.1 | 1.3 |
experiment | 9/8 DT | 3.0 | 9/8 Pcon-pT181 attenuator EcoRI+SpeI | 7.9 | 3.5 |
experiment | 9/6 Plux SpeI+PstI | 2 | 9/7 RBS-lysis1-DT XbaI+PstI | 7.2 | 3.5 |
experiment | 9/8 Plac SpeI+PstI | 4.3 | 9/7 RBS-lysis1-DT XbaI+PstI | 7.2 | 3.5 |
experiment | 9/4 Plac SpeI+PstI | 1.7 | 9/8 RBS-laczα-DT XbaI+PstI | 4.8 | 3.3 |
Restriction Enzyme Digestion
9/8 Pcon-pT181 anti | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 8.2µL | 0µL | 1µL | 0µL | 1µL | 3µL | 3µL | 13.8µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.6µL | 10µL |
9/8 Pcon-spinach-DT | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 7.9µL | 1µL | 1µL | 0µL | 0µL | 3µL | 3µL | 14.1µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.6µL | 10µL |
8/21 F1 attenuator | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 6.5µL | 0µL | 0µL | 1µL | 1µL | 3µL | 3µL | 15.5µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.7µL | 10µL |
8/21 F3m2 attenuator | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 6.0µL | 0µL | 0µL | 1µL | 1µL | 3µL | 3µL | 16µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.7µL | 10µL |
8/21 F1 anti | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 6.7µL | 0µL | 0µL | 1µL | 1µL | 3µL | 3µL | 15.3µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.7µL | 10µL |
8/21 F6 anti | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 6.0µL | 0µL | 0µL | 1µL | 1µL | 3µL | 3µL | 16µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.7µL | 10µL |
8/21 tetR aptamer 12_1M | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 5.3µL | 1µL | 1µL | 0µL | 0µL | 3µL | 3µL | 16.7µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.7µL | 10µL |
8/21 tetR aptamer 12_P | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 13.3µL | 1µL | 1µL | 0µL | 0µL | 3µL | 3µL | 8.7µL | 30µL |
NC | 0.7µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.3µL | 10µL |
9/4 spinach-DT | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 5.4µL | 0µL | 0µL | 1µL | 1µL | 3µL | 3µL | 16.6µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.7µL | 10µL |
9/7 RBS-lysis1-DT | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 10µL | 0µL | 0µL | 1µL | 1µL | 3µL | 3µL | 12µL | 30µL |
NC | 0.5µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.5µL | 10µL |
9/6 RBS-lysis2-DT | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 13µL | 0µL | 0µL | 1µL | 1µL | 3µL | 3µL | 9µL | 30µL |
NC | 0.7µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.3µL | 10µL |
9/7 RBS-lysis3-DT | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 10µL | 0µL | 0µL | 1µL | 1µL | 3µL | 3µL | 12µL | 30µL |
NC | 0.5µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.5µL | 10µL |
8/20 J23100 RBS-lacZα-DT-(1) | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 7µL | 0.5µL | 0.5µL | 0µL | 0µL | 3µL | 3µL | 16µL | 30µL |
NC | 0.5µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.5µL | 10µL |
8/20 RBS-lacZα-DT | EcoRI | SpeI | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 10µL | 0.5µL | 0.5µL | 0µL | 0µL | 3µL | 3µL | 13µL | 30µL |
NC | 0.5µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.5µL | 10µL |
Transformation
Name | Sample(µL) | Competent Cells(µL) | Total(µL) | Plate |
---|---|---|---|---|
9/8 Pcont+aptamer 12-1R-DT | 1 | 10 | 11 | Amp |
9/8 Pcon+RBS-lacZα-DT | 1 | 10 | 11 | Amp |
9/8 Pcon-pT181 attenuator+aptamer 12-1R-DT | 1 | 10 | 11 | Amp |
9/8 Plac+RBS-lysis1-DT | 2 | 20 | 22 | CP |
9/8 Plac+RBS-lysis2-DT | 2 | 20 | 22 | CP |
9/8 Plac+aptamer 12-1R-DT | 2 | 20 | 22 | CP |
9/8 Plac+spinach | 2 | 20 | 22 | CP |
9/8 Plac+pT181 attenuator | 2 | 20 | 22 | CP |
9/8 Plux+RBS-lysis1-DT | 1 | 10 | 11 | CP |
9/8 Plux+RBS-lysis2-DT | 1 | 10 | 11 | CP |
9/8 Ptet+RBS-lacZα-DT | 1 | 10 | 11 | CP |
9/8 Ptet-pT181 anti+spinach-DT | 1 | 10 | 11 | CP |
9/8 Pcon-pT181 attenuator+DT | 1 | 10 | 11 | CP |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | ||
2 | Pcon-spinach-DT | EcoRI | SpeI |
3 | Pcon-spinach-DT | ||
4 | Fusion1 attenuator | XbaI | PstI |
5 | Fusion1 attenuator | ||
6 | Fusion3m2 attenuator | XbaI | PstI |
7 | Fusion3m2 attenuator | ||
8 | Fusion1 anti | XbaI | PstI |
9 | Fusion1 anti | ||
10 | Fusion6 anti | XbaI | PstI |
11 | Fusion6 anti | ||
12 | aptamer 12-1M | XbaI | PstI |
13 | aptamer 12-1M | ||
14 | aptamer 12-P | XbaI | PstI |
15 | aptamer 12-P | ||
16 | spinach-DT | XbaI | PstI |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | spinach-DT | ||
2 | J23100-RBS-lacZα-DT | EcoRI | SpeI |
3 | J23100-RBS-lacZα-DT | ||
4 | 100bp ladder | ||
5 | RBS-lacZα-DT | EcoRI | SpeI |
6 | RBS-lacZα-DT | ||
7 | RBS-lysis1-DT | XbaI | PstI |
8 | RBS-lysis1-DT |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | ||
2 | RBS-lysis2-DT | XbaI | PstI |
3 | RBS-lysis2-DT | ||
4 | RBS-lysis3-DT | XbaI | PstI |
5 | RBS-lysis3-DT | ||
6 | Pcon pT181 anti | SpeI | PstI |
7 | Pcon pT181 anti |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | |
2 | Pcon-spinach-DT | EcoRI+SpeI |
3 | Pcon-Spinach-DT | EcoRI+SpeI |
5 | Fusion 1 attenuator | XbaI+PstI |
6 | Fusion 1 attenuator | XbaI+PstI |
8 | Fusion3m2 attenuator | XbaI+PstI |
9 | Fusion3m2 attenuator | XbaI+PstI |
11 | Fusion 1 antisense | XbaI+PstI |
12 | Fusion 1 antisense | XbaI+PstI |
Name | quantity | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|---|
Pcon-spinach-DT(EcoRI+SpeI) | 10.5 | 1.86 | 0.39 | |
Fusion 1 attenuator(XbaI+PstI) | 7.0 | 1.71 | 0.27 | |
Fusion3m2 attenuator(XbaI+PstI) | 8.6 | 1.75 | 0.47 | |
Fusion 1 antisense(XbaI+PstI) | 7.6 | 1.87 | 0.43 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | |
2 | Fusion6 antisense | XbaI+PstI |
3 | Fusion6 antisense | XbaI+PstI |
5 | aptamer12_1M | XbaI+PstI |
6 | aptamer12_1M | XbaI+PstI |
Name | quantity | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|---|
Fusion6 antisense(XbaI+PstI) | 5.0 | 1.76 | 0.20 | |
aptamer12_1M(XbaI+PstI) | 3.3 | 2.31 | 0.04 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | |
2 | aptamer12_P | XbaI+PstI |
3 | aptamer12_P | XbaI+PstI |
5 | spinach-DT | EcoRI+SpeI |
6 | spinach-DT | EcoRI+SpeI |
Name | quantity | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|---|
aptamer12_P(XbaI+PstI) | 3.4 | 1.72 | 0.26 | |
spinach-DT(EcoRI+SpeI) | 10.1 | 1.57 | 0.47 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | |
2 | J23100-RBS-laczα-DT | EcoRI+SpeI |
3 | J23100-RBS-laczα-DT | EcoRI+SpeI |
5 | RBS-laczα-DT | EcoRI+SpeI |
6 | RBS-laczα-DT | EcoRI+SpeI |
8 | RBS-lysis1-DT | XbaI+PstI |
9 | RBS-lysis1-DT | XbaI+PstI |
11 | RBS-lysis2-DT | XbaI+PstI |
12 | RBS-lysis2-DT | XbaI+PstI |
Name | quantity | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|---|
Pcon-RBS-laczα-DT(EcoRI+SpeI) | 5.6 | 2.03 | 0.25 | |
RBS-laczα-DT(EcoRI+SpeI) | 4.4 | 2.04 | 0.33 | |
RBS-lysis1-DT(XbaI+PstI) | 5.9 | 2.22 | 0.53 | |
RBS-lysis2-DT(XbaI+PstI) | 5.1 | 1.67 | 0.48 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | |
2 | RBS-lysis3-DT | XbaI+PstI |
3 | RBS-lysis3-DT | XbaI+PstI |
5 | Pcon-pT181 antisense | SpeI+PstI |
6 | Pcon-pT181 antisense | SpeI+PstI |
Name | quantity | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|---|
RBS-lysis3-DT(XbaI+PstI) | 23.4 | 1.72 | 0.88 | |
Pcon-pT181 antisense(SpeI+PstI) | 31.3 | 1.86 | 0.92 |
Ligation
state | Vector | Inserter | ||
---|---|---|---|---|
experiment | Pcon-spinach-DT(EcoRI&SpeI) | 10.5µg/mL | pSB6A1(EcoRI&SpeI) | 8.9µg/mL |
experiment | Pcon-spinach-DT(EcoRI&SpeI) | 10.5µg/mL | pSB4K5(EcoRI&SpeI) | 21.8µg/mL |
experiment | Pcon-pT181 anti(SpeI+PstI) | 31.3µg/mL | spinach-DT(XbaI+PstI) | 10.1µg/mL |
experiment | Plac(SpeI+PstI) | 11.6µg/mL | RBS-lysis3-DT | 23.4µg/mL |
experiment | Plux(SpeI+PstI) | 25µg/mL | RBS-lysis3-DT | 23.4µg/mL |
experiment | Ptet-pT181 anti(SpeI+PstI) | 30.6µg/mL | spinach-DT(XbaI+PstI) | 10.1µg/mL |
experiment | Pcon-pT181 attenuator(SpeI+PstI) | 14.5µg/mL | RBS-laczα-DT(XbaI+PstI) | 4.4µg/mL |
PCR
KaiA(plasmid) | KOD plus | 10x buffer | dNTP | MgSO4 | Primer(661-RBS-KaiA-fwd) | Primer(kaiA-662-rev-ver2) | MilliQ | total |
---|---|---|---|---|---|---|---|---|
1 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 15.5 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 57°C | 68°C | -- |
2min | 10s | 30s | 28s | 30cycles |
KaiB(plasmid) | KOD plus | 10x buffer | dNTP | MgSO4 | Primer(662-RBS-KaiB-fwd-ver2) | Primer(kaiB-663-rev-ver2) | MilliQ | total |
---|---|---|---|---|---|---|---|---|
1 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 15.5 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 57°C | 68°C | -- |
2min | 10s | 30s | 28s | 30cycles |
DT(plasmid) | KOD plus | 10x buffer | dNTP | MgSO4 | Primer(664-DT-fwd-ver2) | Primer(DT-suffix-660-rev-ver2) | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.1 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 16.4 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 57°C | 68°C | -- |
2min | 10s | 30s | 28s | 30cycles |
P-KaiB(PCR prpduct) | KOD plus | 10x buffer | dNTP | MgSO4 | Primer(prefix-PkaiBC-fwd-ver2) | Primer(PkaiBC-suffix--662-rev-ver2) | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.7 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 15.8 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 57°C | 68°C | -- |
2min | 10s | 30s | 28s | 30cycles |
Plac(1)(plasmid) | KOD plus | 10x buffer | dNTP | MgSO4 | Primer(GG0-pSBIC3-fwd-ver2) | Primer(Plac-GG1-rev-ver2) | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.13 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 16.37 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 57°C | 68°C | -- |
2min | 10s | 30s | 60s | 30cycles |
KaiC(plasmid) | KOD plus | 10x buffer | dNTP | MgSO4 | Primer(GG3-RBS-KaiC-fwd-ver2) | Primer(KaiC-GG4-rev-ver2) | MilliQ | total |
---|---|---|---|---|---|---|---|---|
1 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 15.5 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 57°C | 68°C | -- |
2min | 10s | 30s | 60s | 30cycles |
Gel Extraction
Lane | DNA |
---|---|
1 | 100bp ladder |
2 | KaiA |
3 | KaiA |
4 | KaiB |
5 | KaiB |
6 | DT |
7 | DT |
8 | P-KaiBC |
9 | P-KaiBC |
10 | nega |
11 | 100bp ladder |
Lane | DNA |
---|---|
1 | Plac |
2 | Plac |
3 | KaiC |
4 | KaiC |
5 | nega |
6 | 1kb ladder |
Sep 9
PCR
KaiA(plasmid) | 10x buffer | dNTPs | MgSO4 | Primer(661-RBS-KaiA-fwd) | Primer(kaiA-662-rev-ver2) | Kod-plus ver2 | MilliQ | total |
---|---|---|---|---|---|---|---|---|
1.0 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 0.5 | 15.5 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 58.5°C | 68°C | -- |
2min | 10s | 30s | 30s | 30cycles |
KaiB(plasmid) | 10x buffer | dNTPs | MgSO4 | Primer(661-RBS-KaiA-fwd-ver2) | Primer(kaiB-663-rev-ver2) | Kod-plus ver2 | MilliQ | total |
---|---|---|---|---|---|---|---|---|
1.0 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 0.5 | 15.5 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 58.5°C | 68°C | -- |
2min | 10s | 30s | 30s | 30cycles |
P-KaiBC(PCR products) | 10x buffer | dNTPs | MgSO4 | Primer(prefix-P-kaiBC-fwd-ver2) | Primer(P-KaiBC-suffix-rev-verw) | Kod-plus ver2 | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.7 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 0.5 | 15.8 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 58.5°C | 68°C | -- |
2min | 10s | 30s | 30s | 30cycles |
DT(plasmid) | 10x buffer | dNTPs | MgSO4 | Primer(664-DT-fwd-ver2) | Primer(DT-suffix-660-rev-ver2) | Kod-plus ver2 | MilliQ | total |
---|---|---|---|---|---|---|---|---|
1.0 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 0.5 | 15.5 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 58.5°C | 68°C | -- |
2min | 10s | 30s | 30s | 30cycles |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | KaiA | -- |
3 | ||
4 | KaiB | -- |
5 | ||
6 | P-KaiBC | -- |
7 | ||
8 | DT | -- |
9 | ||
10 | NC | -- |
11 | 100bp ladder | -- |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
KaiC | 28.5 | 1.26 | 11.92 |
Plac | 53.9 | 1.82 | 1.61 |
KaiB | 59.6 | 1.61 | 2.20 |
KaiB | 76.5 | 1.86 | 1.44 |
DT | 98.7 | 1.47 | 1.43 |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
9/8 pSB1C3 | 83.2 | 1.45 | 0.76 |
9/8 RBS-lysis2-DT | 72.8 | 1.67 | 0.97 |
9/8 spinach-DT | 152.6 | 1.88 | 1.97 |
Nuclease-Free water | -0.4 | -14.30 | 0.25 |
Restriction Enzyme Digestion
9/9 pSB1C3 | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 24µL | 1µL | 1µL | 3µL | 3µL | 22µL | 30µL* |
NC | 1.2µL | 0µL | 0µL | 1µL | 1µL | 6.8 µL | 10µL |
9/9 pSB1C3 | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 27.4µL | 1µL | 1µL | 3µL | 3µL | 22µL | 30µL* |
NC | 1.3µL | 0µL | 0µL | 1µL | 1µL | 6.7µL | 10µL |
9/9 spinach-DT | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 10.8µL | 1µL | 1µL | 3µL | 3µL | 22µL | 30µL* |
NC | 0.5µL | 0µL | 0µL | 1µL | 1µL | 7.5µL | 10µL |
- "*"=be evaporated
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
Pcon+RBS-luxI-DT | 2µL | 20µL | 22µL | Amp |
Pcon-RBS-luxR-DT+Plux-GFP | 2µL | 20µL | 22µL | |
Ptet-PT181 antisense+spinach-DT-Pbad/araC+RBS-lux-DT | 2µL | 20µL | 22µL |
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/8 F1-attenuator(XbaI&PstI) | 5.3µg | 9/8 pSB1C3(XbaI&PstI) | 8.9µg | 3.5µg |
experiment | 9/8 F3m2-attenuator(XbaI&PstI) | 4.5µg | 9/8 pSB1C3(XbaI&PstI) | 8.9µg | 3.5µg |
experiment | 9/8 F1-antisense(XbaI&PstI) | 1.7µg | 9/8 pSB1C3(XbaI&PstI) | 8.9µg | 3.5µg |
experiment | 9/8 F6-antisense(XbaI&PstI) | 2.9µg | 9/8 pSB1C3(XbaI&PstI) | 8.9µg | 3.5µg |
experiment | 9/8 aptamer12-P(EcoRI&SpeI) | 3.1µg | 9/8 pSB1C3(EcoRI&SpeI) | 8.8µg | 3.5µg |
experiment | 9/8 aptamer12-1M(EcoRI&SpeI) | 3.1µg | 9/8 pSB1C(EcoRI&SpeI)3 | 8.8µg | 3.5µg |
M9 medium
EDTA consenlation | Na2HPO4 | KH2PO4 | NaCl | NH4Cl | Fe(Ⅲ)-EDTA | distilled water | total |
---|---|---|---|---|---|---|---|
1mMol | 300mg | 150mg | 25mg | 50mg | 21mg | up to 10mL | 10mL |
10mMol | 300mg | 150mg | 25mg | 50mg | 210.5mg | up to 10mL | 10mL |
50mMol | 300mg | 150mg | 25mg | 50mg | 1052.7mg | up to 10mL | 10mL |
Colony PCR
Sample | base pair |
---|---|
9/8 Plac-spinach-DT-(1) | 659 |
9/8 Plac-spinach-DT-(2) | 659 |
9/8 Pcon-pt181attenuator-DT-(1) | 584 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 40s | 30cycles |
Gel Extraction
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | pSB1C3(XbaI+PstI) | xx µL | 9/8 F1-attenuator(XbaI+PstI) | xx µL | xx µL |
experiment | pSB1C3(XbaI+PstI) | xx µL | 9/8 F3m2-attenuator(XbaI+PstI) | xx µL | xx µL |
PCR
KaiC | 10x buffer KOD plus ver2 | 2M dNTP | MgSO4 | Primer Mix(F&R) | Kod-plus ver2 | MilliQ | total |
---|---|---|---|---|---|---|---|
0.5 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 16.0 | 25.0 |
1.0 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 15.5 | 25.0 |
2.0 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 14.5 | 25.0 |
4.0 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 12.5 | 25.0 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 57°C | 68°C | -- |
2min | 10s | 30s | 2min | 30cycles |
Plac(100pg) | 10x buffer KOD plus ver2 | 2M dNTP | MgSO4 | Primer Mix(F&R) | Kod-plus ver2 | MilliQ | total |
---|---|---|---|---|---|---|---|
0.3 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 16.2 | 25.0 |
0.6 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 15.9 | 25.0 |
1.2 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 15.3 | 25.0 |
2.4 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 14.1 | 25.0 |
0.0 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 16.5 | 25.0 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 57°C | 68°C | -- |
2min | 10s | 30s | 2min | 30cycles |
Liquid Culture
Sample | medium |
---|---|
pSB2C3(master)-2 | Plusgrow medium(+CP) |
Restriction Enzyme Digestion
8/17 lysis1-2 | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 8.1µL | 1µL | 1µL | 3µL | 3µL | 13.9µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 1µL | 1µL | 7.6µL | 10µL |
8/17 lysis3-1 | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 6.1µL | 1µL | 1µL | 3µL | 3µL | 15.9µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 1µL | 1µL | 7.7µL | 10µL |
9/15 Plac | XbaI | PstI | BSA | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|
1 cuts | 12.1µL | 0µL | 1µL | 3µL | 3µL | 10.9µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 1µL | 1µL | 7.7µL | 10µL |
PCR
KaiA(KaiABC) 100pg/µL | 10x buffer KOD plus ver2 | dNTPs | MgSO4 | Primer Mix(Fwd&Rev) | KOD plus ver2 | MilliQ | total |
---|---|---|---|---|---|---|---|
2.0 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 14.5 | 25 |
4.0 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 12.5 | 25 |
8.0 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 8.5 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 60°C | 68°C | -- |
2min | 10s | 30s | 1min | 30cycles |
PKaiBC 400pg/µL | 10x buffer KOD plus ver2 | dNTPs | MgSO4 | Primer Mix(Fwd&Rev) | KOD plus ver2 | MilliQ | total |
---|---|---|---|---|---|---|---|
0.5 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 16.0 | 25 |
1.0 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 15.5 | 25 |
2.0 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 14.5 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 60°C | 68°C | -- |
2m | 10s | 30s | 1m | 30cycles |
Liquid Culture
Sample | medium |
---|---|
9/2 Spinach-DT | Plusgrow medium(+CP) |
8/29 Plux-RBS-GFP-DT | Plusgrow medium |
9/6 master plate | Plusgrow medium(+Amp) |
3 Pcon-PT181 attenuator | Plusgrow medium |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | -- |
3 | lysis3 | XbaI+PstI |
4 | ||
5 | ||
6 |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
(´ω`) | |||
(ΦωΦ^) |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 1kb ladder | -- | -- |
2 | Plac 100pg | -- | -- |
3 | Plac 200pg | -- | -- |
4 | Plac 400pg | -- | -- |
5 | Plac 800pg | -- | -- |
6 | NC | -- | -- |
7 | 1kbp ladder | -- | -- |
Sep 10
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/6 Pcon-RBS-luxR-DT | 1.9µL | 9/6Plux-RBS-GFP-DT | 22 µL | 3.5µL |
experiment | 9/6 Plux | 2µL | 9/8 RBS-lysis1-DT | 6.6µL | 3.5µL |
experiment | 9/6 Plux | 2µL | 9/8 RBS-lysis2-DT | 6.3µL | 3.5µL |
experiment | 9/8 Ptet-PT181 antisense | 1.6µL | 9/8 spinach-DT | 4.4µL | 3.0µL |
experiment | 9/8 Pcon-PT181 attenuator | 3.4µL | 9/8 apz 12-1R-PT | 2.1µL | 2.8µL |
experiment | 9/8 Pcon | 3.4µL | 9/8 apz 12-1R-PT | 2.3µL | 2,9µL |
experiment | 9/8 DT | 3.0µL | 9/8 Pcon-PT181 attenuator | 7.9µL | 3.5µL |
experiment | 9/10 pSB1C3 | 1.8µL | 9/8 F3m2 attenuator | 4.6µL | 3.2µL |
experiment | 9/10 pSB1C3 | 1.8µL | 9/8 F1 attenuator | 3.4µL | 2.6µL |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
spinach-DT | 202.4 | 1.97 | 1.93 |
Plux-RBS-GFP-DT | 164.2 | 2.80 | 2.06 |
Pcon-DT attenuator | 205.4 | 1.81 | 2.39 |
RSBJC3-2 | 240.8 | 1.73 | 1.43 |
Plaz-1 | 240.8 | 1.73 | 1.43 |
Restriction Enzyme Digestion
9/10 Plux-RBS-GFP-DT | EcoRI | SpeI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 12.1µL | 1µL | 1µL | 3µL | 3µL | 9.9µL | 30µL |
NC | 0.6µL | 0µL | 0µL | 1µL | 1µL | 7.4µL | 10µL |
9/10 Spinach-DT | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 9.9µL | 1µL | 1µL | 3µL | 3µL | 12.1µL | 30µL |
NC | 0.5µL | 0µL | 0µL | 1µL | 1µL | 7.5µL | 10µL |
9/6 apt12-1R -DT | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 8.0µL | 1µL | 1µL | 3µL | 3µL | 14.0µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 1µL | 1µL | 7.6µL | 10µL |
9/10 Pcon-pt81 attenuator | EcoRI | SpeI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 9.8µL | 1µL | 1µL | 3µL | 3µL | 12.2µL | 30µL |
NC | 0.5µL | 0µL | 0µL | 1µL | 1µL | 7.5µL | 10µL |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | Plux-RBS-GEP-DT | EcoRI | SpeI |
3 | Plux-RBS-GEP-DT | -- | -- |
4 | Spinach-DT | XbaI | PstI |
5 | Spinach-DT | -- | -- |
6 | aptamer 121R-DT | XbaI | PstI |
7 | aptamer 121R-DT | -- | -- |
8 | Pcon-pt181 attenuator | EcoRI | SpeI |
9 | Pcon-pt181 attenuator | -- | -- |
10 | 100bp ladder | -- | -- |
Colony PCR
Sample | base pair |
---|---|
9/9 Pcon-pT181 antisense | -- |
9/8 J223100(entA) | -- |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 1min10sec | 30 |
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | Pcon Pt181 antisense1+spinach-DT |
3 | Pcon Pt181 antisense2+spinach-DT |
4 | Pcon Pt181 antisense3+spinach-DT |
5 | Pcon Pt181 antisense4+spinach-DT |
6 | Pcon Pt181 antisense5+spinach-DT |
7 | Pcon Pt181 antisense6+spinach-DT |
8 | Pcon Pt181 antisense7+spinach-DT |
9 | Pcon Pt181 antisense8+spinach-DT |
10 | Pcon Pt181 antisense9+spinach-DT |
11 | Pcon Pt181 antisense10+spinach-DT |
12 | Pcon Pt181 antisense11+spinach-DT |
13 | Pcon Pt181 antisense12+spinach-DT |
14 | 100bp ladder |
Lane | Sample |
---|---|
1 | 1kbp ladder |
2 | Pcon entA1 |
3 | Pcon entA2 |
4 | Pcon entA3 |
5 | 1kbp ladder |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | -- |
2 | KaiA(200pg) | -- |
3 | KaiA(200pg) | -- |
4 | -- | -- |
5 | KaiA(400pg) | -- |
6 | KaiA(400pg) | -- |
7 | -- | -- |
8 | KaiA(800pg | -- |
9 | KaiA(800pg) | -- |
10 | 1kbp ladder | -- |
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | -- |
2 | PKaiBC(200pg) | -- |
3 | PKaiBC(200pg) | -- |
4 | -- | -- |
5 | PKaiBC(400pg) | -- |
6 | PKaiBC(400pg) | -- |
7 | -- | -- |
8 | PKaiBC(800pg | -- |
9 | PKaiBC(800pg) | -- |
10 | 1kbp ladder | -- |
Liquid Culture
Sample | medium |
---|---|
9/4 J23100①(JM109) | LB(Amp) |
9/8 J23100① (entA) | LB(Amp) |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | -- |
2 | KaiC | -- |
3 | KaiC | -- |
4 | KaiC | -- |
5 | -- | -- |
6 | 1kbp ladder | -- |
7 | 1kbp ladder | -- |
8 | KaiC | -- |
9 | KaiC | -- |
10 | KaiC | -- |
11 | -- | -- |
12 | 1kbp ladder | -- |
Liquid Culture
Sample | medium |
---|---|
9/10 Pcon-pt181 antisense-Spinach-DT | Plusgrow |
Colony PCR
Sample | base pair |
---|---|
9/9 Phad larac-1 RBS-lux1-DT | 2331 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 2min | 30 |
Sample | base pair |
---|---|
9/9 Pcon-lacZα (psB4KS) | 712 |
9/9 Pcon-Spinach-DT(psB4KS) | 605 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 42s | 30 |
Sample | base pair |
---|---|
9/9 Plac+RBS-lysis3}-DT | 1273 |
9/9 Pcon+RBS-lux1-DT | 1079 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 1min12s | 30 |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | 9/9 Pcou-RBS-lacZα-DT(p3B4KS9)-1 | -- | -- |
3 | 9/9 Pcou-RBS-lacZα-DT(p3B4KS9)-2 | -- | -- |
4 | 9/9 Pcou-Spinach-DT(pB4KS)-1 | -- | -- |
5 | 9/9 Pcou-Spinach-DT(pB4KS)-2 | -- | -- |
6 | 100bp ladder | -- | -- |
Transformation
Name | Plate |
---|---|
F1 attenuator +p3B1C3 | CP |
F3n2 attenuator +p3B1C3 | CP |
F1 antisense +p3B1C3 | CP |
F6 antisense+p3B1C3 | CP |
apt12-P +p3B1C3 | CP |
apt12-1M +p3B1C3 | CP |
Pcon-luxR+Plux-GFP | Amp |
Plux+RBS-lysis1-DT | CP |
Plux+RBS-lysis2-DT | CP |
Ptet-pT181antisense+Spinach-DT | CP |
Pcon-pT181 attenuator+apt121R-DT | Amp |
Pcon-1 apt12-1R-DT | Amp |
DT+Pcon-pT181 attenuator | CP |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | Spinach-DT | XbaI | PstI |
3 | Spinach-DT | XbaI | PstI |
4 | Spinach-DT | XbaI | PstI |
5 | Spinach-DT | XbaI | PstI |
6 | 100bp ladder | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | Pcon-pT181 attenuator | EcoRI | SpeI |
3 | Pcon-pT181 attenuator | EcoRI | SpeI |
4 | Pcon-pT181 attenuator | EcoRI | Spei |
5 | Pcon-pT181 attenuator | EcoRI | SpeI |
6 | 100bp ladder | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | Plux-RBS-GFP-DT | EcoRI | SpeI |
2 | Plux-RBS-GFP-DT | EcoRI | SpeI |
3 | Plux-RBS-GFP-DT | EcoRI | SpeI |
4 | Plux-RBS-GFP-DT | EcoRI | SpeI |
5 | 100bp ladder | -- | -- |
6 | apt12-1R-DT | XbaI | PstI |
7 | apt12-1R-DT | XbaI | PstI |
8 | apt12-1R-DT | XbaI | PstI |
9 | apt12-1R-DT | XbaI | PstI |
Sep 11
Electrophoresis
Lane | Sample |
---|---|
1 | 1kb ladder |
2 | Pbad/araC+RBS-luxI-DT-1 |
3 | Pbad/araC+RBS-luxI-DT-1 |
4 | Plac+RBS-lysis-DT |
5 | Pcon+RBS-luxI-DT |
6 | 1kb ladder |
PCR
pKaiBC(200p) | 10*buffer KOD plus | dNTPs | MgSO4 | primer mix(F&R) | KOD plus | MilliQ | total |
---|---|---|---|---|---|---|---|
0.5 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 16 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 60°C | 68°C | 30 |
2min | 10sec | 30sec | 30sec |
pKaiBC(400p) | 10*buffer KOD plus | dNTPs | MgSO4 | primer mix(F&R) | KOD plus | MilliQ | total |
---|---|---|---|---|---|---|---|
1 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 15.5 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 60°C | 68°C | 30 |
2min | 10sec | 30sec | 30sec |
pKaiBC(800p) | 10*buffer KOD plus | dNTPs | MgSO4 | primer mix(F&R) | KOD plus | MilliQ | total |
---|---|---|---|---|---|---|---|
2 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 14.5 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 60°C | 68°C | 30 |
2min | 10sec | 30sec | 30sec |
pKaiBC(1ng) | 10*buffer KOD plus | dNTPs | MgSO4 | primer mix(F&R) | KOD plus | MilliQ | total |
---|---|---|---|---|---|---|---|
2.5 | 2.5 | 2.5 | 1.5 | 1.5 | 0.5 | 14 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 60°C | 68°C | 30 |
2min | 10sec | 30sec | 30sec |
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | pKaiBC 800pg 60°C |
3 | pKaiBC 1ng 60°C |
4 | pKaiBC 800pg 61°C |
5 | pKaiBC 1ng 61°C |
6 | pKaiBC 800pg 62°C |
7 | pKaiBC 1ng 62°C |
8 | 100bp ladder |
colony PCR
Sample | base pair |
---|---|
9/9Pcon-lacZα(p3B4k5) | 712bp |
9/9Pcon-spinach-DT(p3B4k5) | 605bp |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 42s | 30 |
Sample | base pair |
---|---|
Pbad\araC-RBS-luxI-DT |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 2min | 30 |
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | Pcon-lacZα(pSB4K5)3 |
3 | Pcon-lacZα(pSB4K5)4 |
4 | Pcon-lacZα(pSB4K5)5 |
5 | Pcon-lacZα(pSB4K5)6 |
6 | Pcon-spinach-DT(pSB4K5)3 |
7 | Pcon-spinach-DT(pSB4K5)4 |
8 | Pcon-spinach-DT(pSB4K5)5 |
9 | Pcon-spinach-DT(pSB4K5)6 |
10 | 100bp ladder |
Lane | Sample |
---|---|
1 | 1kbp ladder |
2 | Pbad/araC-RBS-luxI-DT3 |
3 | Pbad/araC-RBS-luxI-DT4 |
4 | Pbad/araC-RBS-luxI-DT5 |
5 | Pbad/araC-RBS-luxI-DT6 |
6 | 1kbp ladder |
colony PCR
Sample | base pair |
---|---|
9/9Pcon+RBS-luxI-DT | 1079bp |
9/10Pcon+sptamer12_1R-DT | 584bp |
9/10DT+Pcon-pT181 attenuator 1 | 781bp |
9/10Fusion1 attenuator(p3B1C3)-1 | 638bp |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
50sec | 30sec | 30sec | 1min | 30 |
Gel Extraction
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/8pSB4K5(EcoRI&SpeI)21.8ng/µL | 2.3 µL | 9/8Pcon-Spinach-DT(EcoRI&SpeI)10.5ng/µL | 1.7 µL | 2.0 µL |
experment | 9/8pSB4K5(EcoRI&SpeI)21.8ng/µL | 2.3 µL | 9/8RBS-lacZα-DT(EcoRI&SpeI)4.4ng/µL | 6.7µL | 3.5 µL |
experiment | 9/8pSB4K5(EcoRI&SpeI)21.8ng/µL | 2.3 µL | 9/8Pcon-RBS-lacZα-DT(EcoRI&SpeI)5.6ng/µL | 1.9 µL | 2.1 µL |
experiment | 9/6Plux 25ng/µL | 2 µL | 9/8 RBS-lysis1-DT(XbaI&PstI) | 6.6 µL | 3.5 µL |
experiment | 9/6Plux 25ng/µL | 2 µL | 9/8 RBS-lysis3-DT(XbaI&PstI) | 4.7 µL | 3.4 µL |
experiment | 9/10Pcon-pT181 attenuator(SpeI&PstI) | 3.4µL | 9/8RBS-lacZα-DT(EcoRI&SpeI) | 4.5 µL | 3.5 µL |
experiment | 9/6Pcon-RBS laxR-DT(EcoRI&XbaI) 26.7ng/µL | 1.9 µL | Plax-RBS-GFP-DT | 5.5 µL | 3.5 µL |
experiment | 9/9 Pcon-pT181 attenuator(SpeI&PstI) | 3.4 µL | 9/10 aptamer12_1R-DT(XbaI&PstI) | 1.7 µL | 2.6 µL |
Transformation
Name | Sample | Competent Cells | Total | Plate | |
---|---|---|---|---|---|
9/9 Fusion1 antisense(pSB2C3) | 2µL | 20µL | 22µL | CP | |
9/9 Fusion6 antisense(pSB2C3) | 2µL | 20µL | 22µL | CP | |
9/9 aptamer 12_P(pSB2C3) | 2µL | 20µL | 22µL | CP | |
9/9 aptamer 12_1µ(pSB2C3) | 2µL | 20µL | 22µL | CP | |
9/9 Fusion2 attenuator(pSB2C3) | 2µL | 20µL | 22µL | CP | |
9/11 Pcon-spinach-DT(pSB4K5) | 2µL | 20µL | 22µL | K | |
9/11 RBS-lacZα-DT(pSB4K5) | 2µL | 20µL | 22µL | K | |
9/11 Pcon-RBS-lacZα-DT(pSB4K5) | 2µL | 20µL | 22µL | K | |
Plux+RBS-lysis1-DT | 2µL | 20µL | 22µL | CP | |
Plux+RBS-lysis3-DT | 2µL | 20µL | 22µL | CP | |
Pcon-pT181attenuator+RBS-lacZα-DT | 2µL | 20µL | 22µL | Amp | |
Pcon-iuxR+Plux-GFP | 2µL | 20µL | 22µL | Amp | |
Pcon-pT181attenuator+apt12_1R-DT | 2µL | 20µL | 22µL | Amp | |
Plac(BBa_R0011) | 2µL | 20µL | 22µL | Amp |
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | Pcon+RBS luxI-DT2 |
3 | Pcon+RBS luxI-DT3 |
4 | Pcon+RBS luxI-DT4 |
5 | Pcon+RBS luxI-DT5 |
6 | Pcon+RBS luxI-DT6 |
7 | Pcon+apF12_1R-DT1 |
8 | Pcon+apF12_1R-DT2 |
9 | Pcon+apF12_1R-DT3 |
10 | Pcon+apF12_1R-DT4 |
11 | DT+Pcon-pT181attenuator1 |
12 | F1attenuator(pSB1C3) |
13 | 100bp ladder |
Restriction Enzyme Digestion
DNA | EcoRI | XbaI | SpeI | PstI | buffer | BSA | MilliQ | Total | |
---|---|---|---|---|---|---|---|---|---|
pSB4K5(EcoRI+SpeI) | 9.4µL | 1µL | 0µL | 1µL | 0µL | 3µL | 3µL | 12.6µL | 30 µL |
pSB4K5(EcoRI+SpeI) negative | 0.5µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.5µL | 10µL |
RBS-lacZα-DT(EcoRI+SpeI) | 10µL | 1µL | 0µL | 1µL | 0µL | 3µL | 3µL | 12µL | 30µL |
RBS-lacZα-DT(EcoRI+SpeI) negative | 0.5µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.5µL | 10µL |
Ptet-pT181 antisense(SteI+PstI) | 10.8µL | 0µL | 0µL | 1µL | 1µL | 3µL | 3µL | 12µL | 30µL |
Ptet-pT181 antisense(SteI+PstI) negative | 0.5µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.5µL | 10µL |
Pcon-RBS-lacZα-DT(EcoRI+SpeI) | 7.1µL | 1µL | 0µL | 1µL | 0µL | 3µL | 3µL | 14.9µL | 30µL |
Pcon-RBS-lacZα-DT(EcoRI+SpeI) negative | 0.4µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.6µL | 10µL |
RBS-lysis2-DT(XbaI+PstI) | 22µL | 0µL | 1µL | 0µL | 1µL | 3µL | 3µL | 0µL | 30µL |
RBS-lysis2-DT(XbaI+PstI) negative | 1.4µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 6.6µL | 10µL |
Liquid Culture
Sample | medium |
---|---|
8/16 Master4 Plax | |
8/25 Pλ-laxI-2 |
PCR
8/29 Pλ-RBS-luxI-DT(76.5ng/µL) | 10x buffer for KOD plus-ver.2 | KOD-plus | dNTP | MgSO4 | F primer(RBS-luxI-DT-cloning-fwd) | R primer(RBS-luxI-DT-cloning-rev) | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.3 | 2.5 | 0.5 | 2.5 | 1.5 | 0.75 | 0.75 | 16.2 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 65°C | 68°C | -- |
5min | 30sec | 30sec | 1min | 30 |
8/31 Pbad/araC-RBS-RFP(1)(67.6ng/µL) | 10x buffer for KOD plus-ver.2 | KOD-plus | dNTP | MgSO4 | F primer(Pbad/araC(pSBlc3)-cloning-fwd) | R primer(Pbad/araC(pSBlc3)-cloning-rev) | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.3 | 2.5 | 0.5 | 2.5 | 1.5 | 0.75 | 0.75 | 16.2 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 54°C | 68°C | -- |
5min | 30sec | 30sec | 3min 20sec | 30 |
Liquid Culture
Sample | medium |
---|---|
9/4 RBS-lysis1+DT 3 | plusgrow(+CP) 3ml 37°C |
9/4 RBS-lysis2+DT 1 | plusgrow(+CP) 3ml 37°C |
9/4 RBS-lysis3+DT 3 | plusgrow(+CP) 3ml 37°C |
Sep 12
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Pcon-pT181attenuator-DT | 293.6 | 1.88 | 1.84 |
Pcon-apt12-1R-DT | 303.8 | 1.75 | 1.64 |
Fusion1attenuator(pSB1c3) | 172.0 | 1.96 | 2.31 |
RBS-lisis1-DT | 235.1 | 1.59 | 1.60 |
RBS-lisis2-DT | 387.7 | 1.91 | 2.01 |
RBS-lisis3-DT | 387.9 | 1.91 | 2.09 |
Plux | 166.7 | 1.98 | 1.63 |
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | 9/11 P-RBS-lisis1-DT(Colony PCR prodution) |
Liquid Culture
Sample | medium |
---|---|
9/10 Pcon-apt12-1R-DT1 | Plusgrow medium(+Amp) |
9/10 DT-Pcon-pT181attenuator1 | Plusgrow medium(+CP) |
9/10 Fusion1-attenuator(pSB1c3) | Plusgrow medium(+CP) |
Electrophoresis
Lane | Sample |
---|---|
1 | 1kb ladder |
2 | pSB4K5(EcoRI&SpeI) |
3 | pSB4K5 NC(EcoRI&SpeI) |
4 | RBS-lacz-DT(EcoRI&SpeI) |
5 | EcoRI&SpeI NC( EcoRI&SpeI) |
6 | Pcon-RBS-lacz-DT( EcoRI&SpeI) |
7 | Pcon-RBS-lacz-DT NC( EcoRI&SpeI) |
8 | 1kb ladder |
2
Lane | Sample |
---|---|
1 | 1kb ladder |
2 | Ptet-pT181antisense(SpeI&PstI) |
3 | Ptet-pT181antisense NC(SpeI&PstI) |
4 | RBS-lysis2-DT(XbaI&PstI) |
5 | EcoRI&SpeI NC( EcoRI&SpeI) |
6 | -- |
7 | -- |
8 | 1kb ladder |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kb ladder | -- |
2 | RBS-lacZα-DT | EcoRI&SpeI |
3 | RBS-lacZα-DT | EcoRI&SpeI |
4 | RBS-lacZα-DT | EcoRI&SpeI |
5 | -- | -- |
6 | Pcon-RBS-lacZα-DT | EcoRI&SpeI |
7 | Pcon-RBS-lacZα-DT | EcoRI&SpeI |
8 | Pcon-RBS-lacZα-DT | EcoRI&SpeI |
9 | 1kb ladder | -- |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
RBS-lacZα-DT(EcoRI&SpeI) | 9.8 | 1.50 | 0.39 |
Pcon-RBS-lacZα-DT(EcoRI&SpeI) | 11.2 | 1.47 | 0.08 |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kb ladder | -- |
2 | RBS-lysis2-DT | XbaI&PstI |
3 | RBS-lysis2-DT | XbaI&PstI |
4 | RBS-lysis2-DT | XbaI&PstI |
5 | -- | -- |
6 | 1kb ladder | -- |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
RBS-lysis2-DT(XbaI&PstI) | 5.4 | 1.43 | 0.77 |
Electrophoresis
Lane | Sample |
---|---|
1 | 1kb ladder |
2 | Pλ-RBS-luxI-DT(PCR product) |
3 | Pbad/araC-RBS-RFP(PCR product) |
Colony PCR
Sample | base pair |
---|---|
9/11 apt12-1M(pSB1C3) 1 | 513 |
9/11 apt12-1M(pSB1C3) 2 | 513 |
9/11 Fusion3m2a09ttenuator(pSB1C3) 1 | 609 |
9/11 Fusion6 antisense(pSB1C3)1 | 431 |
9/11 aptamer 12-P(pSB1C3)1 | 515 |
9/11 Fusion1 antisense(pSB1C3) 1 | 420 |
9/11 Fusion1 antisense(pSB1C3) 2 | 420 |
9/11 Plac(BBa-R0011) 1 | 293 |
9/11 Plac(BBa-R0011) 2 | 293 |
9/11 Plac(BBa-R0011) 3 | 293 |
9/11 Plac(BBa-R0011) 4 | 293 |
9/11 Pcon-luxR-Plux-GFP 1 | 2138 |
9/11 Pcon-RBS-lacZα-DT(pSB4K5) 1 | 712 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 2min12s | 30cycles |
Restriction Enzyme Digestion
9/5 Pcon | EcoRI | SpeI | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
1cuts(PstI) | 5.7 | 0µL | 0µL | 0µL | 1µL | 3µL | 3µL | 17.3µL | 30µL |
NC(PstI) | 1.9 | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 6.1µL | 10µL |
8/17 DT | EcoRI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|
1cut(EcoRI) | 10.6 | 1µL | 3µL | 3µL | 12.4µL | 30µL |
NC(EcoRI) | 3.5 | 0µL | 1µL | 1µL | 4.5µL | 10µL |
Colony PCR
Sample | base pair |
---|---|
9/11 Pcon-pT181attenuator-RBS-lacZα-DT | 965 |
9/11 Plux-PBS-lysis1-DT 1 | 613 |
9/11 Pcon-pT181attenuator-aptamer12-1R-DT 1 | 859 |
9/11 Pcon-pT181attenuator-aptamer12-1R-DT 2 | 859 |
9/11 Plux-RBS-lysis3-DT 1 | 1210 |
9/11 Plux-RBS-lysis3-DT 2 | 1210 |
Pcon-Spinach-DT(pSB4K5) 1 | 605 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 1min12s | 30cycles |
Transformation
Name | Sample | Competent Cells | Plate |
---|---|---|---|
9/7 pSB4K5 | 2µL | 20µL | Amp |
Electrophoresis
1
Lane | Sample |
---|---|
1 | Fusion6 antisense |
2 | Fusion1 antisense-1 |
3 | Fusion1 antisense-2 |
4 | 100bp ladder |
5 | Plac(BBa-R0011) 1 |
6 | Plac(BBa-R0011) 2 |
7 | Plac(BBa-R0011) 3 |
8 | Plac(BBa-R0011) 4 |
2
Lane | Sample |
---|---|
1 | 1kb ladder |
2 | aptamer12-1M 1 |
3 | aptamer12-1M 2 |
4 | Fusion3m2 attenuator |
5 | aptamer12-P1 |
6 | Plux-RBS-GFP-DT-Pcon-RBS-luxR-DT |
7 | Pcon-RBS-lacZα=DT |
8 | 1kb ladder |
Electrophoresis
Lane | Sample | Enzyme |
---|---|---|
1 | Pcon-pT181attenuator-RBS-lacZα-DT 1 | -- |
2 | Pcon-pT181attenuator-RBS-lacZα-DT 2 | -- |
3 | Plux-RBS-lysis1-DT 1 | -- |
4 | Pcon-pT181attenuator-aptamer12-1R-DT 1 | -- |
5 | Pcon-pT181attenuator-aptamer12-1R-DT 2 | -- |
6 | Plux-RBS-lysis3-DT 1 | -- |
7 | 1kbp ladder | -- |
8 | Plux-RBS-lysis3-DT 2 | -- |
9 | Pcon-spinach-DT(pSB4K5) 1 | -- |
10 | 9/5 Pcon | PstI |
11 | 9/5 Pcon NC | -- |
12 | 8/17 DT | EcoRI |
13 | 8/17 DT | -- |
Liquid Culture
Sample | medium |
---|---|
9/11Fusion6 antisense-1 | Plusgrow medium(+CP) |
Plac(BBa-R0011)-3 | Plusgrow medium(+Amp) |
Plac(BBa-R0011)-4 | Plusgrow medium(+Amp) |
Fusion3m2 attenuator -1 | Plusgrow medium(+CP) |
Pλ-luxI-2 | Plusgrow medium(+Amp) |
9/11 aptamer12-1M-2 | Plusgrow medium(+CP) |
Colony PCR
Sample | base pair |
---|---|
9/11 Fusion1 antisense 3 | 394 |
9/11 Fusion1 antisense 4 | 394 |
9/11 aptamer12-P 2 | 378 |
9/11 aptamer12-P 3 | 378 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 36s | 30cycles |
Electrophoresis
Lane | Sample | Enzyme |
---|---|---|
1 | Fusion1 antisense 2 | -- |
2 | Fusion1 antisense 3 | -- |
3 | 1kb ladder | -- |
4 | apt12-P 2 | -- |
5 | apt12-P 3 | -- |
Restriction Enzyme Digestion
9/12 RBS-lysis2-DT | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 5.2 | 1.0µL | 1.0µL | 3.0µL | 3.0µL | 16.8µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 1.0µL | 1.0µL | 7.7µ | 10µL |
9/12 RBS-lysis3-DT | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 5.2 | 1.0µL | 1.0µL | 3.0µL | 3.0µL | 16.8µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 1.0µL | 1.0µL | 7.7µ | 10µL |
9/11 RBS-lysis1-DT | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 8.5 | 1.0µL | 1.0µL | 3.0µL | 3.0µL | 13.5µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 1.0µL | 1.0µL | 7.6µ | 10µL |
8/20 J23100-RBS-luxR -DT | EcoRI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|
1cut | 5.8 | 1.0µL | 3.0µL | 3.0µL | 17.2µL | 30µL |
NC | 0.3µL | 0µL | 1.0µL | 1.0µL | 7.7µ | 10µL |
9/10 pSB1C3 | EcoRI | SpeI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 8.1 | 1.0µL | 1.0µL | 3.0µL | 3.0µL | 13.9µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 1.0µL | 1.0µL | 7.6µ | 10µL |
9/12 Plux | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|
1cut | 12.0 | 1.0µL | 3.0µL | 3.0µL | 11.0micro;L | 30µL |
NC | 0.6µL | 0µL | 1.0µL | 1.0µL | 7.4µ | 10µL |
9/10 pSB1C3 | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 8.1 | 1.0µL | 1.0µL | 3.0µL | 3.0µL | 13.9µL | 30µL |
Electrophoresis
Lane | Sample | Enzyme1 | Enzymel2 |
---|---|---|---|
1 | 9/12 RBS-lysis2-DT | XbaI | PstI |
2 | 9/12 RBS-lysis2-DT NC | -- | -- |
3 | 9/11 RBS-lysis1-DT | XbaI | PstI |
4 | 9/11 RBS-lysis1-DT NC | -- | -- |
5 | 9/11 RBS-lysis3-DT | XbaI | PstI |
6 | 9/11 RBS-lysis3-DT NC1 | -- | -- |
7 | 1kb ladder | -- | -- |
8 | 100bp ladder | -- | -- |
9 | J23100-RBS-luxR-DT | EcoRI | -- |
10 | J23100-RBS-luxR-DT | -- | -- |
11 | 9/10 pSB1C3 | EcoRI | SpeI |
12 | 9/10 pSB1C3 NC | -- | --- |
13 | 9/10 pSB1C3 | XbaI | PstI |
14 | 9/12 Plux | PstI | -- |
15 | 9/12 Plux NC | -- | -- |
Observation through a confocal microscope
We used the liquid culture media with 200μL 9/10Pcon-pT181antisense-spinach-DT& 200μL 9/10 Pcon-spinach-DT& 200μL 9/10 JM109(overnight culture).
We translated them into each 1.5mL tube.
We elminated each supernatant using a 5000xg centrifuge for 1minute,.
Then,we resuspended with 100µL M9(distilled water) and eliminated each supernatant using a 5000xg centrifuge for 1 minute.x2
Adding 100µL M9(in 20µM DFHBI), we resuspended the pret.
15min after incubating in shield light, we eliminated each supernatant using a 5000xg centrifuge for 1 minute.
We looked at the fluorescence of the pret.
We failed to observe it.
Liquid Culture
Sample | medium |
---|---|
9/10 Pcon-pT181antisense-spinach-DT | Plusgrow medium |
9/10 Pcon-spinach-DT | Plusgrow medium |
9/1 spinach-DT(RNA master plate) | Plusgrow medium |
Sep 13
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
9/12 Fusion6 antisense | 245.9 | 1.88 | 1.41 |
9/12 Plux-3 | 115.5 | 1.58 | 1.32 |
9/12 Plux-4 | 125.3 | 1.93 | 1.44 |
9/12 Fusion3n2 attenuator-1 | 231.9 | 1.81 | 1.31 |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kb ladder | -- |
2 | RBS-lysis1-DT | XbaI&PstI |
3 | RBS-lysis1-DT | XbaI&PstI |
4 | RBS-lysis1-DT | XbaI&PstI |
Lane | DNA | Enzyme |
---|---|---|
1 | 1kb ladder | -- |
3 | RBS-lysis2-DT | XbaI&PstI |
4 | RBS-lysis2-DT | XbaI&PstI |
5 | RBS-lysis2-DT | XbaI&PstI |
Lane | DNA | Enzyme |
---|---|---|
3 | RBS-lysis3-DT | XbaI&PstI |
4 | RBS-lysis3-DT | XbaI&PstI |
5 | RBS-lysis3-DT | XbaI&PstI |
6 | 1kb ladder | -- |
Lane | DNA | Enzyme |
---|---|---|
2 | 1kb ladder | -- |
3 | pSB1C3 | EcoRI&SpeI |
4 | pSB1C3 | EcoRI&SpeI |
5 | pSB1C3 | EcoRI&SpeI |
Lane | DNA | Enzyme |
---|---|---|
1 | 1kb ladder | -- |
2 | pSB1C3 | XbaI&PstI |
3 | pSB1C3 | XbaI&PstI |
4 | pSB1C3 | XbaI&PstI |
Restriction Enzyme Digestion
9/13 Plac | EcoRI | SpeI | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
1cuts(PstI) | 16 | 0µL | 0µL | 0µL | 1µL | 3µL | 3µL | 7µL | 30µL |
NC | 0.8 | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.2µL | 10µL |
9/10 Pcon attenuator | EcoRI | SpeI | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
1cut(PstI) | 10 | 0µL | 0µL | 0µL | 1µL | 3µL | 3µL | 13µL | 30µL |
NC | 0.5 | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.5µL | 10µL |
9/12 Plux | EcoRI | SpeI | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
1cuts(PstI) | 12 | 0µL | 0µL | 0µL | 1µL | 3µL | 3µL | 11µL | 30µL |
NC | 0.6 | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.4µL | 10µL |
9/12 DT-E | EcoRI | SpeI | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
1cut(XbaI) | 23.7 | 0µL | 0µL | 1µL | 0µL | 3µL | 3µL | 0µL | 30.7µL |
NC | 1.2 | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 6.8µL | 10µL |
9/12 Pcon-RBS-luxR-bTE | EcoRI | SpeI | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
1cuts(XbaI) | 22.4 | 0µL | 0µL | 1µL | 0µL | 3µL | 3µL | 0.6µL | 30µL |
NC | 2.2 | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 5.8µL | 10µL |
9/12 Pcon-P | EcoRI | SpeI | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
1cut(SpeI) | 21 | 0µL | 1µL | 0µL | 0µL | 3µL | 3µL | 12.0µL | 30µL |
NC | 2.1 | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 5.7µL | 10µL |
M9 (EDTA)
1mM EDTA
volume | 10ml |
---|---|
Na2HPO4 | 300mg |
KH2PO4 | 150mg |
NaCl | 25mg |
NH4Cl | 50mg |
Fe(3)-EDTA | 21mg |
volume | 10ml |
---|---|
Na2HPO4 | 300mg |
KH2PO4 | 150mg |
NaCl | 25mg |
NH4Cl | 50mg |
Fe(3)-EDTA | 105mg |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kb ladder | -- |
3 | Pcon-P | SpeI |
4 | Pcon-P | SpeI |
5 | Pcon-P | SpeI |
Liquid Culture
Sample | medium |
---|---|
9/11 aptamer12_1M(pSB1C3)-1 | -- |
9/11 aptamer 12_P1 | -- |
9/11 Fusaion1 antisense-4 | -- |
9/12 pSB4K5-1 | -- |
9/12 pSB4K5-2 | -- |
Restriction Enzyme Digestion
9/13 Plac-P | EcoRI | SpeI | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
1cuts(SpeI) | 23.5 | 0µL | 0.5µL | 0µL | 0µL | 3µL | 3µL | 0µL | 30µL |
NC | 8 | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 0µL | 10µL |
9/13 Pcon-pT181 attenuator-P | EcoRI | SpeI | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
1cut(SpeI) | 23.5 | 0µL | 0.5µL | 0µL | 0µL | 3µL | 3µL | 0µL | 30µL |
NC | 02.3 | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 5.7µL | 10µL |
9/13 Plux-P | EcoRI | SpeI | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
1cuts(SpeI) | 23.8 | 0µL | 0.2µL | 0µL | 1µL | 3µL | 3µL | 0µL | 30µL |
NC | 8 | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 0µL | 10µL |
9/5 RBS-lacZα-DT | EcoRI | SpeI | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2cut(XbaI&PstI) | 10.8 | 0µL | 0µL | 1µL | 1µL | 3µL | 3µL | 11.2µL | 30µL |
NC | 0.5 | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.5µL | 10µL |
Electrophoresis
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/13 Plac (SpeI&PstI) | 8.5µL | 9/13 pT181 antisense (XbaI&PstI) | 2.1 µL | 5.3 µL |
experiment | 9/13 Plac (SpeI&PstI) | 8.5 µL | 9/10 aptamer 12_1R-DT (XbaI&PstI) | 1.8 µL | 5.15µL |
experiment | 9/13 Plac (SpeI&PstI) | 8.5 µL | 9/2 pT181 attenuator(XbaI&PstI) | 2.3 µL | 10.4 µL |
experiment | 9/13 Plux (SpeI&PstI) | 11.4 µL | 9/13 RBS-lysis1-DT (XbaI&PstI) | 5.0 µL | 8.2 µL |
experiment | 9/13 Plux (SpeI&PstI) | 11.4 µL | 9/13 RBS-lysis2-DT (XbaI&PstI) | 7.0 µL | 9.2 µL |
experiment | 9/13 Plux (SpeI&PstI) | 7.2 µL | 9/13 RBS-lysis3-DT (XbaI&PstI) | 6.0 µL | 6.6 µL |
experiment | 9/13 Pcon-RBS-luxR-DT (EcoRI&XbaI) | 2.0 µL | 9/4 Plux-RBS-GFP-DT (EcoRI&SpeI) | 5.2 µL | 3.6 µL |
experiment | 9/13 Pcon-RBS-luxR-DT (EcoRI&XbaI) | 2.0 µL | 9/10 aptamer 12_1R-DT (XbaI&PstI) | 1.6 µL | 1.8 µL |
experiment | 9/12 Ptet-pT181 antisense (--) | 1.0 µL | 9/10 spinach-DT (--) | 2.4 µL | 1.7 µL |
PCR
genome DNA | Big Dye | MilliQ | 5x buffer | temp(400mg) | SasA_fwd primer | SasA_rev primer | total |
---|---|---|---|---|---|---|---|
9/7 tetR aptamer 12_1R(pSB1C3) | 0.5 | 6.05 | 1.75 | 1.7 | 0.5 | 0 | 10.5 |
genome DNA | Big Dye | MilliQ | 5x buffer | temp(400mg) | SasA_fwd primer | SasA_rev primer | total |
---|---|---|---|---|---|---|---|
9/6 pT181 antisense-1(pSB1C3) | 0.5 | 6.05 | 1.75 | 1.7 | 0.5 | 0 | 10.5 |
genome DNA | Big Dye | MilliQ | 5x buffer | temp(400mg) | SasA_fwd primer | SasA_rev primer | total |
---|---|---|---|---|---|---|---|
9/6 pT181 attenuator (pSB1C3) | 0.5 | 3.85 | 1.75 | 3.9 | 0.5 | 0 | 10.5 |
genome DNA | Big Dye | MilliQ | 5x buffer | temp(400mg) | SasA_fwd primer | SasA_rev primer | total |
---|---|---|---|---|---|---|---|
8/27 Pλ-RBS-luxI-DT-1 | 0.5 | 2.55 | 1.75 | 5.2 | 0.5 | 0 | 10.5 |
genome DNA | Big Dye | MilliQ | 5x buffer | temp(400mg) | SasA_fwd primer | SasA_rev primer | total |
---|---|---|---|---|---|---|---|
8/31 Pbad/araC-RBS-RFP-2 | 0.5 | 3.75 | 1.75 | 4 | 0.5 | 0 | 10.5 |
genome DNA | Big Dye | MilliQ | 5x buffer | temp(400mg) | SasA_fwd primer | SasA_rev primer | total |
---|---|---|---|---|---|---|---|
9/13 Plac(pSB1A2) | 0.5 | 4.2 | 1.75 | 3.5 | 0.5 | 0 | 10.5 |
genome DNA | Big Dye | MilliQ | 5x buffer | temp(400mg) | SasA_fwd primer | SasA_rev primer | total |
---|---|---|---|---|---|---|---|
8/20 J23100-RBS-lacZα-DT | 0.5 | 6.35 | 1.75 | 1.4 | 0.5 | 0 | 10.5 |
genome DNA | Big Dye | MilliQ | 5x buffer | temp(400mg) | SasA_fwd primer | SasA_rev primer | total |
---|---|---|---|---|---|---|---|
9/7 Ptet-RBS-lacZα-DT | 0.5 | 6.05 | 1.75 | 1.7 | 0.5 | 0 | 10.5 |
genome DNA | Big Dye | MilliQ | 5x buffer | temp(400mg) | SasA_fwd primer | SasA_rev primer | total |
---|---|---|---|---|---|---|---|
9/8 J23100-spinach-DT | 0.5 | 5.75 | 1.75 | 2 | 0.5 | 0 | 10.5 |
genome DNA | Big Dye | MilliQ | 5x buffer | temp(400mg) | SasA_fwd primer | SasA_rev primer | total |
---|---|---|---|---|---|---|---|
9/11 RBS-lysis1-DT | 0.5 | 6.05 | 1.75 | 1.7 | 0.5 | 0 | 10.5 |
genome DNA | Big Dye | MilliQ | 5x buffer | temp(400mg) | SasA_fwd primer | SasA_rev primer | total |
---|---|---|---|---|---|---|---|
9/12 RBS-lysis2-DT | 0.5 | 6.75 | 1.75 | 1.0 | 0.5 | 0 | 10.5 |
genome DNA | Big Dye | MilliQ | 5x buffer | temp(400mg) | SasA_fwd primer | SasA_rev primer | total |
---|---|---|---|---|---|---|---|
9/12 RBS-lysis3-DT | 0.5 | 6.75 | 1.75 | 1.0 | 0.5 | 0 | 10.5 |
genome DNA | Big Dye | MilliQ | 5x buffer | temp(400mg) | SasA_fwd primer | SasA_rev primer | total |
---|---|---|---|---|---|---|---|
9/8 J23100-spinach-DT | 0.5 | 6.35 | 1.75 | 1.4 | 0 | 0.5 | 10.5 |
genome DNA | Big Dye | MilliQ | 5x buffer | temp(400mg) | SasA_fwd primer | SasA_rev primer | total |
---|---|---|---|---|---|---|---|
8/27 Pλ-RBS-luxI-DT-1 | 0.5 | 2.55 | 1.75 | 5.2 | 0 | 0.5 | 10.5 |
genome DNA | Big Dye | MilliQ | 5x buffer | temp(400mg) | SasA_fwd primer | SasA_rev primer | total |
---|---|---|---|---|---|---|---|
9/12 RBS-lysis2-DT | 0.5 | 6.75 | 1.75 | 1.0 | 0 | 0.5 | 10.5 |
genome DNA | Big Dye | MilliQ | 5x buffer | temp(400mg) | SasA_fwd primer | SasA_rev primer | total |
---|---|---|---|---|---|---|---|
9/11 RBS-lysis1-DT | 0.5 | 6.05 | 1.75 | 1.7 | 0 | 0.5 | 10.5 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
96°C | 96°C | 50°C | 68°C | -- |
2m | 10s | 5s | 4m | 30 |
PCR
genome DNA | KOD plus | 10x buffer | dNTP | MgSO4 | Prefix-RBS-RpaB_fwd primer | RpaB-GG4-suffix_rev primer | MilliQ | total |
---|---|---|---|---|---|---|---|---|
RpaB | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 16.5 | 25 |
genome DNA | KOD plus | 10x buffer | dNTP | MgSO4 | Prefix-PkaiBC_fwd primer ver.3 | PkaiBC-suffix_rev primer ver.3 | MilliQ | total |
---|---|---|---|---|---|---|---|---|
RpaB | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 16.5 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 58°C | 68°C | -- |
2m | 10s | 30s | 30s | 30 |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
3 | RBS-lacZα-DT | XbaI&PstI |
4 | RBS-lacZα-DT | XbaI&PstI |
5 | RBS-lacZα-DT | XbaI&PstI |
6 | RBS-lacZα-DT | XbaI&PstI |
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
9/13 Plac+pT181 antisense | 2µL | 20µL | 22µL | Amp |
9/13 Plac+apt12_1R | 2µL | 20µL | 22µL | Amp |
9/13 Plac+pT181 attenuator | 2µL | 20µL | 22µL | Amp |
9/13 Plux+pT181 antisense | 2µL | 20µL | 22µL | CP |
9/13 Plux+RBS-lysis2-DT | 2µL | 20µL | 22µL | CP |
9/13 Plux+RBS-lysis2-DT | 2µL | 20µL | 22µL | CP |
9/13 Pcon-RBS-lacR-DT+Plux-RBS-GFP-DT | 2µL | 20µL | 22µL | Amp |
9/13 Pcon-pT181 antisense+apt12_1R-DT | 2µL | 20µL | 22µL | Amp |
9/13 Ptet-pT181antisense+spinach-DT | 2µL | 20µL | 22µL | CP |
Pλ-luxI-1 | 2µL | 20µL | 22µL | Amp |
Sep 14
Restriction Enzyme Digestion
9/14 pSB4K5S | EcoRI | XbaI | SpeI | PstI | BufferB | BufferD | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|---|
2cuts | 10µL | 1µL | 0µL | 1µL | 0µL | 3µL | 0µL | 3µL | 12µL | 30µL |
NC | 0.5µL | 0µL | 0µL | 0µL | 0µL | 1µL | 0µL | 1µL | 7.5µL | 10µL |
9/13 Plac | XbaI | PstI | BufferH | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
1 cut | 9µL | 0µL | 1µL | 3µL | 3µL | 14µL | 30µL |
NC | 1µL | 0µL | 0µL | 1µL | 1µL | 7µL | 10µL |
9/14 PKaiBC | EcoRI | XbaI | SpeI | PstI | BufferB | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2cuts | 11µL | 1µL | 0µL | 1µL | 0µL | 3µL | 3µL | 11µL | 30µL |
NC | 4µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 4µL | 10µL |
9/14 RpaB | EcoRI | XbaI | SpeI | PstI | BufferD | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2cuts | 13µL | 0µL | 1µL | 0µL | 1µL | 3µL | 3µL | 9µL | 30µL |
NC | 2µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 5µL | 10µL |
8/17 RBS-GFP-DT | EcoRI | XbaI | SpeI | PstI | BufferD | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
1cut | 9µL | 0µL | 1µL | 0µL | 0µL | 3µL | 3µL | 14µL | 30µL |
NC | 0.5µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.5µL | 10µL |
- incubated 37°C 1hour
Liquid Culture
Sample | medium |
---|---|
9/11 Plac(BBa-R0011)-(3) | Plusgrow medium(+Amp) |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 1kb ladder | -- | -- |
2 | pSB4K5(1) | EcoRI | SpeI |
3 | pSB4K5(1) | -- | -- |
4 | Plac(1A2) | PstI | -- |
5 | Plac(1A2) | -- | -- |
6 | PKaiBC | EcoRI | SpeI |
7 | PKaiBC | -- | -- |
8 | RpaB(1) | XbaI | PstI |
9 | RpaB(1) | -- | -- |
10 | RBS-GFP-DT | XbaI | -- |
11 | RBS-GFP-DT | -- | -- |
12 | 1kb ladder | -- | -- |
Lane | Sample | Enzyme |
---|---|---|
1 | 1kb ladder | -- |
2 | Plac(pSB1A2) | PstI |
3 | Plac(pSB1A2) | -- |
Sequence PCR
genome DNA | Big Dye | 5x buffer | temp(400mg) | primer | milliQ |
---|---|---|---|---|---|
Pcon-RBS-luxR-DT | 0.5 | 1.75 | 0.9 | 0.5 | 6.85 |
Pcon-RBS-luxR-DT | 0.5 | 1.75 | 0.4 | 0.5 | 7.35 |
Pcon-RBS-tetR-DT | 0.5 | 1.75 | 3 | 0.5 | 5.25 |
Pcon-RBS-tetR-DT | 0.5 | 1.75 | 3 | 0.5 | 5.25 |
Plux | 0.5 | 1.75 | 2.4 | 0.5 | 5.35 |
Plux-RBS-GFP-DT | 0.5 | 1.75 | 1.9 | 0.5 | 5.85 |
Plux-RBS-GFP-DT | 0.5 | 0.5 | 1.9 | 0.5 | 5.85 |
Pcon-RBS-GFP-DT | 0.5 | 0.5 | 1.2 | 0.5 | 6.55 |
Pcon-RBS-GFP-DT | 0.5 | 0.5 | 1.2 | 0.5 | 6.55 |
RBS-lysis3-DT | 0.5 | 0.5 | 1.0 | 0.5 | 6.75 |
Pcon-antisense-Spinach-DT | 0.5 | 0.5 | 1.4 | 0.5 | 6.35 |
Pcon-RBS lacZα-DT | 0.5 | 0.5 | 1.4 | 0.5 | 6.35 |
Ptet-RBS lacZα-DT | 0.5 | 0.5 | 0.59 | 0.5 | 1.85 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
96°C | 96°C | 50°C | 60°C | -- |
2min | 10sec | 5sec | 4min | 30cycle |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kb ladder | -- |
2 | pSB4K5 | EcoRI&SpeI |
3 | pSB4K5 | EcoRI&SpeI |
4 | pSB4K5 | EcoRI&SpeI |
Restriction Enzyme Digestion
9/14 Plac(1A2) | EcoRI | XbaI | SpeI | PstI | BufferB | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2cuts | 23µL | 0µL | 0µL | 0.3µL | 0µL | 3µL | 3µL | 0µL | 30µL |
9/14 RBS-GFP-DT | EcoRI | XbaI | SpeI | PstI | BufferH | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 23µL | 1µL | 0µL | 0µL | 0µL | 3µL | 3µL | 0µL | 30µL |
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/13 Pcon-PT181attenuator(SpeI&PstI) | 1.7 | 9/13 RBS-lacZα-DT (XbaI & PstI) | 12.5 | 5 |
experiment | 9/13 pSB2C3 (XbaI & PstI) | 1.9 | 9/14 RpaB (XbaI & PstI) | 16.3 | 10.5 |
experiment | 9/13 pSB2C3 (XbaI & PstI) | 4.7 | 9/14 PkaiBC (EcoRI & SpeI) | 6.7 | 5.7 |
experiment | 9/14 RBS-GFP-DT (PstI&XbaI) | 0.7 | 9/14 PkaiBC (EcoRI & SpeI) | 2.6 | 1.6 |
experiment | 9/14 Plac (SpeI&PstI) | 2.4 | 9/14 RBS-lysis1-DT (XbaI & PstI) | 4.9 | 3.6 |
experiment | 9/14 Plac (SpeI&PstI) | 2.4 | 9/14 RBS-lysis2-DT (XbaI & PstI) | 7.0 | 4.7 |
experiment | 9/14 Plac (SpeI&PstI) | 2.4 | 9/14 RBS-lysis3-DT (XbaI & PstI) | 9.2 | 5.8 |
Samples were evaporeted used evaporator into about 7 µL
Colony PCR
Sample | base pair |
---|---|
9/13 Plux+RBS-lysis1-DT (1)~(3) | -- |
9/13 Plux+RBS-lysis2-DT (1)~(3) | - |
9/13 Plux+RBS-lysis3-DT (1)~(2) | - |
Sample | base pair |
---|---|
9/13 Pcon-RBS-luxR-DT+Plux-RBS-GFP-DT (1)~(4) | -- |
9/13 Pcon-PT181attenuator+aptamer121R-DT (1)~(2) | - |
9/13 Plac+PT181attenuator (1) | - |
Sample | base pair |
---|---|
Dλ-lux(1) (1)~(2) | -- |
NC | -- |
Electrophoresis
Lane | Sample |
---|---|
1 | 1kbp ladder |
2 | 9/13 Plux+RBS-lysis1-DT1 |
3 | 9/13 Plux+RBS-lysis1-DT2 |
4 | 9/13 Plux+RBS-lysis1-DT3 |
5 | 9/13 Plux+RBS-lysis2-DT1 |
6 | 9/13 Plux+RBS-lysis2-DT2 |
7 | 9/13 Plux+RBS-lysis2-DT3 |
8 | 9/13 Plux+RBS-lysis3-DT1 |
9 | 9/13 Plux+RBS-lysis3-DT2 |
10 | 9/13 Pcon-RBS-luxR-DT+Plux-RBS-GFP-DT1 |
11 | 9/13 Pcon-RBS-luxR-DT+Plux-RBS-GFP-DT2 |
12 | 9/13 Pcon-RBS-luxR-DT+Plux-RBS-GFP-DT3 |
13 | 9/13 Pcon-RBS-luxR-DT+Plux-RBS-GFP-DT4 |
14 | 9/13 Ptet-pT181 antisense+Spinach-DT1 |
15 | 9/13 Pcon-pT181 attenuator+aptamer12-1R-PT1 |
16 | 9/13 Pcon-pT181 attenuator+aptamer12-1R-PT1 |
17 | 9/13 Plac+pT181 attenuator |
Lane | Sample |
---|---|
1 | 1kbp ladder |
2 | Pλ-lux(1)1 |
3 | Pλ-lux(1)1 |
4 | NC |
Liquid Culture
Sample | medium |
---|---|
9/13 Pλ-luxI(1)-1 | Plusgrow medium(+Amp) |
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
9/13 RBS-lysisZα-DT(XbaI&PstI)+9/13 Pcon-PT181 attenuator(SpeI&PstI) | 2µL | 20µL | 22µL | Amp |
9/13 SB2C3+9/14 PzαB | 2µL | 20µL | 22µL | CP |
9/13 pSB2C3+9/14 PkaiBC | 2µL | 20µL | 22µL | CP |
9/13 RBS-GFP-DT+9/14 PkaiBC | 2µL | 20µL | 22µL | CP |
Plac+RBS-lysis1-DT | 2µL | 20µL | 22µL | Amp |
Plac+RBS-lysis2-DT | 2µL | 20µL | 22µL | Amp |
Plac+RBS-lysis2-DT | 2µL | 20µL | 22µL | Amp |
Sequence PCR
genome DNA | temp | Big Dye | 5x buffer | primer | MilliQ |
---|---|---|---|---|---|
9/6 PT181 attenuator(VR) | 3.9 | 0.5 | 1.75 | 0.5 | 3.85 |
8/17 RBS lacZα-DT | 2.1 | 0.5 | 1.75 | 0.5 | 5.65 |
9/6 PT181 attenuator(VR) | 3.9 | 0.5 | 1.75 | 0.5 | 3.85 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
96°C | 50°C | 60°C | 4°C | -- |
10sec | 5sec | 4min | 1min | 30cycle |
Sep 15
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Pλ-luxI | 225 | 1.59 | 0.83 |
Liquid Culture
Sample | medium |
---|---|
9/13 Pλ-luxI-1 | |
9/7 pSB4K5-1 | |
9/11 Plac-3 |
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/13 Pcon(SpeI & PstI) | 3.6 µL | 9/12 RBS-lacZα-DT(XbaI & PstI) | 4.7 µL | 8 µL |
Restriction Enzyme Digestion
DNA | EcorI | SpeI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
9/7Pcon-RBS-tetR-DT (EcoRI & SpeI) | 15 µL | 1 µL | 1 µL | 3 µL | 3 µL | 6 µL | 30 µL |
NC | 0.7 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.3 µL | 10 µL |
DNA | EcoRI | SpeI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
9/12 Pcon-pT181 attenuator-DT (EcoRI & SpeI) | 6.8 µL | 1 µL | 1 µL | 3 µL | 3 µL | 15.2 µL | 30 µL |
NC | 0.3 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.7 µL | 10 µL |
DNA | EcoRI | SpeI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
9/12 Pcon-apt12_1R-DT(EcoRI & SpeI) | 6.6 µL | 1 µL | 1 µL | 3 µL | 3 µL | 15.4 µL | 30 µL |
NC | 0.3 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.7 µL | 10 µL |
DNA | EcoRI | SpeI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
9/8 Pcon-spinach-DT (EcoRI & SpeI) | 7.6 µL | 1 µL | 1 µL | 3 µL | 3 µL | 15.4 µL | 30 µL |
NC | 0.3 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.7 µL | 10 µL |
DNA | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
9/11 Pcon-pT181 anticodone-spinach-DT(XbaI & PstI) | 7.2 µL | 1 µL | 1 µL | 3 µL | 3 µL | 14.8 µL | 30 µL |
NC | 0.4 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.6 µL | 10 µL |
DNA | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
8/17 RBS-lacZα-DT (XbaI & PstI) | 5.3 µL | 1 µL | 1 µL | 3 µL | 3 µL | 16.7 µL | 30 µL |
NC | 0.5 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.5 µL | 10 µL |
DNA | EcoRI | XbaI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
9/7 Ptet-RBS-LacZα-DT (EcoRI & XbaI) | 2.9 µL | 1 µL | 1 µL | 3 µL | 3 µL | 18.5 µL | 30 µL |
NC | 1.5 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7 µL | 10 µL |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1,14 | 100bp ladder | ||
2 | Pcon-RBS-tetR-DT | EcoRI | SpeI |
3 | Pcon-RBS-tetR-DT | ||
4 | Pcon-pT181 attenuator-DT | EcoRI | SpeI |
5 | Pcon-pT181 attenuator-DT | ||
6 | Pcon-apt12-1R-DT | EcoRI | SpeI |
7 | Pcon-apt12-1R-DT | ||
8 | Pcon-spinach-DT | EcoRI | SpeI |
9 | Pcon-spinach-DT | ||
10 | Pcon-pT181 antisense-spinach-DT | XbaI | PstI |
11 | Pcon-pT181 antisense-spinach-DT | ||
12 | RBS-lacZα-DT | XbaI | PstI |
13 | RBS-lacZα-DT | ||
15 | Ptet-RBS-lacZα-DT | EcoRI | XbaI |
16 | Ptet-RBS-lacZα-DT | ||
17 | 1kbp ladder |
Gel Extraction
1
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | |
2~4 | Pcon-pT181 attenuator-DT | EcoRI & SpeI |
6~8 | Pcon-apt12_1R-DT | |
10~12 | Pcon-spinach-DT |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | |
2~4 | Pcon-pT181 anticodone-spinach-DT | XbaI & PstI |
6~8 | RBS-lacZα-DT | XbaI & PstI |
10~12 | Pcon-RBS-tetR-DT | EcoRI & SpeI |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
9/15 Ptet-RBS-lacZα-DT (EcoRI & SpeI) | 1.9 | 1.08 | 0.77 |
9/15 Pcon-RBS-tetR-DT (EcoRI & SpeI) | 5.9 | 1.30 | 0.17 |
9/15 RBS-lacZα-DT (XbaI & PstI) | 1.0 | 0.85 | 0.44 |
Pcon-pT181 anticodone-spinach-DT (XbaI & PstI) | 1.3 | 0.95 | 0.28 |
Pcon-spinach-DT | 0.9 | 1.37 | 0.05 |
Pcon-apt12_1R-DT | 1.7 | 1.42 | 0.29 |
Pcon-pT181 attenuator-DT (EcoRI & SpeI) | 2.1 | 1.53 | 0.46 |
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/13 pSB1C3 EcoRI & SpeI | 4.7 µL | 9/15 Pcon-RBS-tetR-DT EcoRI & SpeI | 1.9 µL | xx µL |
experiment | 9/13 pSB1C3 EcoRI & SpeI | 4.7 µL | 9/15 Pcon-spinach-DT EcoRI & SpeI | 4.7 µL | xx µL |
experiment | 9/13 pSB1C3 EcoRI & SpeI | 4.7 µL | 9/15 Pcon-apt12_1R-DT EcoRI & SpeI | 2.0 µL | xx µL |
experiment | 9/13 pSB1C3 EcoRI & SpeI | 4.7 µL | 9/15 Pcon-pT181 attenuator-DT EcoRI & SpeI | 3.0 µL | xx µL |
experiment | 9/13 pSB1C3 XbaI & PstI | 1.9 µL | 9/15 Pcon-pT181 anticodone-spinach-DT XbaI & PstI | 4.4 µL | xx µL |
experiment | 9/13 pSB1C3 EcoRI & SpeI | 4.7 µL | 9/3 pT181 attenuator EcoRI & SpeI | 3.8 µL | xx µL |
experiment | 9/6 Pcon SpeI & PstI | 1.4 µL | 9/15 RBS-lacZα-DT XbaI & PstI | 2.0 µL | xx µL |
experiment | 9/14 pSB 4k5 EcoRI & SpeI | µL | 9/15 Pcon-spinach-DT EcoRI & SpeI | 9.4 µL | xx µL |
experiment | 9/15 Peet-RBS-lacZα-DT EcoRI & XbaI | 2.6 µL | Pcon-RBS-tetR-DT EcoRI & SpeI | 1.5 µL | xx µL |
Restriction Enzyme Digestion
DNA | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
9/13 pT181 attenuator XbaI & PstI | 6.3 µL | 1 µL | 1 µL | 3 µL | 3 µL | 15.7 µL | 30 µL |
NC | 0.3 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.7 µL | 10 µL |
DNA | EcoRI | SpeI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
9/10 pSB1C3 EcoRI & SpeI | 8.1 µL | 1 µL | 1 µL | 3 µL | 3 µL | 13.9 µL | 30 µL |
NC | 0.4 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.6 µL | 10 µL |
DNA | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
9/14 pSB4k5 XbaI & PstI | 9.5 µL | 1 µL | 1 µL | 3 µL | 3 µL | 12.5 µL | 30 µL |
NC | 0.5 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.5 µL | 10 µL |
DNA | SpeI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
9/11 DT SpeI & PstI | 10.4 µL | 1 µL | 1 µL | 3 µL | 3 µL | 11.6 µL | 30 µL |
NC | 0.5 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.5 µL | 10 µL |
DNA | SpeI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
9/6 apt12_1R-DT SpeI & PstI | 7.9 µL | 1 µL | 1 µL | 3 µL | 3 µL | 14.1 µL | 30 µL |
NC | 0.4 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.6 µL | 10 µL |
DNA | SpeI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
9/10 spinach-DT SpeI & PstI | 9.9 µL | 1 µL | 1 µL | 3 µL | 3 µL | 12.1 µL | 30 µL |
NC | 0.5 µL | 0 µL | 0 µL | 1 µL | 1 µL | 7.5 µL | 10 µL |
Liquid Culture
Sample | medium |
---|---|
pSB1C3 | |
DT | |
Spinach-DT |
Sep 16
Liquid Culture
Sample | medium |
---|---|
pSB1C3+P-KaiBC① | Plusgrow medium(+CP) |
pSB1C3+P-KaiBC② | Plusgrow medium(+CP) |
Colony PCR
Sample | base pair |
---|---|
pSB1C3+P-KaiBC① | 283 |
pSB1C3+P-KaiBC② | 283 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
2min | 30s | 30s | 18s | 30cycles |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kb ladder | |
2 | pT181 attenuator | XbaI+PstI |
3 | pT181 attenuator | XbaI+PstI |
4 | pT181 attenuator | XbaI+PstI |
6 | pSB1C3 | EcoRI+SpeI |
7 | pSB1C3 | EcoRI+SpeI |
8 | pSB1C3 | EcoRI+SpeI |
10 | pSB4K5 | XbaI+PstI |
11 | pSB4K5 | XbaI+PstI |
12 | pSB4K5 | XbaI+PstI |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
pT181 attenuator(XbaI+PstI) | 8.2 | 1.62 | 0.11 |
pSB1C3(EcoRI+SpeI) | 49.5 | 1.48 | 0.18 |
pSB4K5(XbaI+PstI) | 18.1 | 1.73 | 0.57 |
DT(SpeI+PstI) | 70.4 | 1.36 | 1.02 |
aptamer12-1R-DT(SpeI+PstI) | 42.0 | 1.82 | 0.47 |
spinach-DT(SpeI+PstI) | 36.8 | 1.79 | 0.61 |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Dx-lux1 | 136.7 | 1.46 | 1.28 |
RBS-laczα-DT | 237.6 | 1.88 | 1.70 |
pSB4K5 | 148.4 | 1.55 | 1.09 |
Pcon-KBS-tetR-DT | 126.6 | 1.73 | 1.36 |
9/11Plac1 | 160.0 | 1.78 | 1.28 |
9/15Plac2 | 144.0 | 1.73 | 1.81 |
9/14Plac | 332.5 | 1.51 | 2.33 |
Ptet-RBS-laczα-DT | 231.3 | 1.84 | 1.57 |
PCR
DNA | 9/6pT181 antisense psB1C3(1) | KOD plus | 10x buffer | dNTP | MgSO4 | GG1_1C3_fwd primer | GG2_1C3_rev primer | MilliQ | total |
---|---|---|---|---|---|---|---|---|---|
400pg | 1 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 15.5 | 25 |
800pg | 2 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 14.5 | 25 |
1000pg | 2.5 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 14 | 25 |
nega | 0 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 16.5 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 57°C | 68°C | -- |
2min | 10s | 30s | 30s | 30cycles |
DNA | 9/6 12-1R aptamer-DT | KOD plus | 10x buffer | dNTP | MgSO4 | GG1_1C3_fwd primer | GG1_1C3_rev primer | MilliQ | total |
---|---|---|---|---|---|---|---|---|---|
400pg | 1 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 15.5 | 25 |
800pg | 2 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 14.5 | 25 |
1000pg | 2.5 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 14 | 25 |
NC | 0 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 16.5 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 57°C | 68°C | -- |
2min | 10s | 30s | 30s | 30cycles |
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | antisense 1000pg |
3 | antisense 800pg |
4 | antisense 400pg |
5 | tet aptamer-DT 1000pg |
6 | tet aptamer-DT 800pg |
7 | tet aptamer-DT 400pg |
8 | NC |
Restriction Enzyme Digestion
9/16 Pcon-RBS-tetR-DT(µL) | EcoRI(µL) | SpeI(µL) | XbaI(µL) | PstI(µL) | Buffer(µL) | BSA(µL) | MilliQ(µL) | total(µL) | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 15.8 | 0 | 0 | 1 | 1 | 3 | 3 | 6.2 | 30 |
NC | 0.8 | 0 | 0 | 0 | 0 | 1 | 1 | 7.2 | 10 |
9/16 pSB4K5(µL) | EcoRI(µL) | SpeI(µL) | XbaI(µL) | PstI(µL) | Buffer(µL) | BSA(µL) | MilliQ(µL) | total(µL) | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 13.5 | 0 | 0 | 1 | 1 | 3 | 3 | 8.5 | 30 |
NC | 0.7 | 0 | 0 | 0 | 0 | 1 | 1 | 7.3 | 10 |
8/22 pSB1C3(µL) | EcoRI(µL) | SpeI(µL) | XbaI(µL) | PstI(µL) | Buffer(µL) | BSA(µL) | MilliQ(µL) | total(µL) | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 18.5 | 1 | 0 | 0 | 1 | 3 | 3 | 3.5 | 30 |
NC | 0.9 | 0 | 0 | 0 | 0 | 1 | 1 | 7.1 | 10 |
8/22 pSB1C3(µL) | EcoRI(µL) | SpeI(µL) | XbaI(µL) | PstI(µL) | Buffer(µL) | BSA(µL) | MilliQ(µL) | total(µL) | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 18.5 | 1 | 1 | 0 | 0 | 3 | 3 | 3.5 | 30 |
NC | 0.9 | 0 | 0 | 0 | 0 | 1 | 1 | 7.1 | 10 |
8/21 pT181 attenuator2(µL) | EcoRI(µL) | SpeI(µL) | XbaI(µL) | PstI(µL) | Buffer(µL) | BSA(µL) | MilliQ(µL) | total(µL) | |
---|---|---|---|---|---|---|---|---|---|
2 cuts | 7.4 | 1 | 1 | 0 | 0 | 3 | 3 | 14.6 | 30 |
NC | 0.4 | 0 | 0 | 0 | 0 | 1 | 1 | 7.6 | 10 |
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | Pcon-pT181antisense-spinach-DT(XbaI+PstI) | 5.0µg/mL | pSB4K5(XbaI+PstI) | 18.1µg/mL | xx µg/mL |
experiment | pC181 attenuator(XbaI+PstI) | 8.2µg/mL | pSB1C3(XbaI+PstI) | 26.0µg/mL | xx µg/mL |
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
Pcon+RBS-laczα-DT | µL | µL | µL | |
Pcon-pT181 attenuator-DT+pSB1C3 | µL | µL | µL | |
pT181 attenuator(EcoRI&SpeI)+pSB1C3 | µL | µL | µL | |
Pcon-aptamer12_1R-DT(EcoRI&SpeI)+pSB1C3 | µL | µL | µL | |
Pcon-spinach-DT(EcoRI&SpeI)+pSB1C3 | µL | µL | µL | |
Pcon-RBS-tetR-DT(EcoRI&SpeI)+pSB1C3 | µL | µL | µL | |
Pcon-pT181 antisense-spinach-DT(XbaI&PstI)+pSB1C3 | µL | µL | µL |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
9/15 pSBiC3 | 111.7 | 1.79 | 1.36 |
9/15 spinach-DT | 113.9 | 1.57 | 1.38 |
9/15 DT | 77.0 | 2.05 | 1.92 |
PCR
9/14 aptamer12-P(VF) | Big Dye | 5×Buffer | primer | MilliQ | total |
---|---|---|---|---|---|
1.5 | 0.5 | 1.75 | 0.5 | 5.75 | 10.5 |
9/14 aptamer12-1M(VF) | Big Dye | 5×Buffer | primer | MilliQ | total |
---|---|---|---|---|---|
1.7 | 0.5 | 1.75 | 0.5 | 6.05 | 10.5 |
9/14 Fusion1 attenuator(VF) | Big Dye | 5×Buffer | primer | MilliQ | total |
---|---|---|---|---|---|
2.3 | 0.5 | 1.75 | 0.5 | 5.45 | 10.5 |
9/14 Fusion1 antisense(VF) | Big Dye | 5×Buffer | primer | MilliQ | total |
---|---|---|---|---|---|
1.3 | 0.5 | 1.75 | 0.5 | 6.45 | 10.5 |
9/13 Fusion3m2 attenuator(VF) | Big Dye | 5×Buffer | primer | MilliQ | total |
---|---|---|---|---|---|
1.7 | 0.5 | 1.75 | 0.5 | 6.05 | 10.5 |
9/13 Fusion6 antisense(VF) | Big Dye | 5×Buffer | primer | MilliQ | total |
---|---|---|---|---|---|
1.6 | 0.5 | 1.75 | 0.5 | 6.15 | 10.5 |
9/12 plux(VR) | Big Dye | 5×Buffer | primer | MilliQ | total |
---|---|---|---|---|---|
2.4 | 0.5 | 1.75 | 0.5 | 5.35 | 10.5 |
9/9 Ptet antisense(VF) | Big Dye | 5×Buffer | primer | MilliQ | total |
---|---|---|---|---|---|
2.2 | 0.5 | 1.75 | 0.5 | 5.55 | 10.5 |
9/12 Pcon-pT181 attenuator-DT(VF) | Big Dye | 5×Buffer | primer | MilliQ | total |
---|---|---|---|---|---|
1.4 | 0.5 | 1.75 | 0.5 | 6.35 | 10.5 |
9/12 Pcon-pT181 attenuator-DT(VR) | Big Dye | 5×Buffer | primer | MilliQ | total |
---|---|---|---|---|---|
1.4 | 0.5 | 1.75 | 0.5 | 6.35 | 10.5 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
96°C | 96°C | 50°C | 60°C | -- |
2min | 10s | 5s | 4min | 30cycles |
Sep 17
Liquid Culture
Sample | medium |
---|---|
Spinach-DT | LB medium(+CP) |
Pcon-Spinach-DT | LB medium(+Amp) |
Pcon-pT181 antisense-Spinach-DT | LB medium(+Amp) |
PCR
Pcon-tetR aptamer-DT(VF) | BigDye | 5x buffer | primer(VF) | MilliQ | total |
---|---|---|---|---|---|
1.3 | 0.5 | 1.75 | 0.5 | 0.45 | 10.5 |
Pcon-tetR aptamer-DT(VR) | BigDye | 5x buffer | primer(VR) | MilliQ | total |
---|---|---|---|---|---|
1.3 | 0.5 | 1.75 | 0.5 | 0.45 | 10.5 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
96 °C | 96 °C | 50 °C | 60 °C | -- |
2 min | 10 sec | 5 sec | 4 min | 30 cycles |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 1kbp ladder | -- | -- |
2 | Pcon-RBS-tetR-DT | XbaI | PstI |
3 | Pcon-RBS-tetR-DT | -- | -- |
4 | pSB4K5 | XbaI | PstI |
5 | pSB4K5 | -- | -- |
6 | pSB1C3 | EcoRI | SpeI |
7 | pSB1C3 | EcoRI | PstI |
8 | pSB1C3 | -- | -- |
9 | pT181 attenuator | EcoRI | SpeI |
10 | pT181 attenuator | -- | -- |
11 | 1kbp ladder | -- | -- |
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 8/28 Plux (SpeI & PstI) | 5.0 µL | 9/13 RBS-lysis1-DT (XbaI & PstI) | 3.5 µL | 3.5 µL |
experiment | 8/28 Plux (SpeI & PstI) | 5.0 µL | 9/13 RBS-lysis2-DT (XbaI & PstI) | 3.6 µL | 3.5 µL |
experiment | 8/28 Plux (SpeI & PstI) | 11.0 µL | 9/13 RBS-lysis3-DT (XbaI & PstI) | 9.5 µL | 3.5 µL |
experiment | 9/14 Plac (SpeI & PstI) | 2.4 µL | 9/16 pT181 attenuator-DT (XbaI & PstI) | 4.8 µL | 3.5 µL |
experiment | 9/14 Plac (SpeI & PstI) | 2.4 µL | 9/3 pT181 antisense (XbaI & PstI) | 2.0 µL | 2.2 µL |
experiment | 9/14 Plac (SpeI & PstI) | 2.4 µL | 9/10 aptamer 12_1R-DT (XbaI & PstI) | 1.8 µL | 2.1 µL |
experiment | 9/13 pSB1C3 (XbaI & PstI) | 2.0 µL | 9/15 Pcon-PT181 antisense-Spinach-DT (XbaI & PstI) | 12.0 µL | 3.5 µL |
experiment | 9/16 pSB1C3 (EcoRI & SpeI) | 1.0 µL | 9/15 Pcon-Spinach-DT (EcoRI & SpeI) | 4.1 µL | 2.5 µL |
experiment | 9/16 pSB1C3 (EcoRI & SpeI) | 1.0 µL | 9/15 Pcon-RBS-tetR-DT (EcoRI & SpeI) | 2.0 µL | 1.5 µL |
experiment | 9/16 pSB1C3 (EcoRI & SpeI) | 1.0 µL | 9/15 Pcon-PT181 attenuator-DT (EcoRI & SpeI) | 2.4 µL | 1.7 µL |
experiment | 9/16 pSB1C3 (EcoRI & SpeI) | 1.0 µL | 9/15 Pcon-aptamer 12_1R-DT (EcoRI & SpeI) | 2.0 µL | 1.5 µL |
experiment | 9/13 pSB1C3 (XbaI & PstI) | 2.0 µL | 9/16 Pcon-pT181-attenuator (XbaI & PstI) | 4.4 µL | 3.2 µL |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | -- |
2 | pT181 attenuator -(2) | EcoRI & SpeI |
3 | ||
4 |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
pT181 attenuator (EcoI & SpeI) | 9.2 | 1.15 | 0.12 |
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | -- |
2 | pSB1C3 | EcoRI & SpeI |
3 | ||
4 |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
pSB1C3 | 10.0 | 1.84 | 0.40 |
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | -- |
2 | pSB4K5 | XbaI & PstI |
3 | ||
4 |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
pSB4K5 | 7.6 | 1.81 | 0.32 |
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | -- |
2 | Pcon-RBS-tetR-DT | XbaI & PstI |
3 | ||
4 |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Pcon-RBS-tetR-DT | 8.0 | 2.40 | 1.14 |
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | -- |
2 | pSB1C3 | EcoRI & PstI |
3 | ||
4 |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
pSB1C3 | 9.1 | 2.17 | 0.35 |
Mutation PCR
pC KaiABC(100pg/µL) | Prime STAR(2x) | Primer(KaiA-BsaI MuT-Fwd) | Primer(KaiA-BsaI MuT-Rev) | MilliQ | total |
---|---|---|---|---|---|
1.0 | 25.0 | 1.0 | 1.0 | 22.0 | 50.0 |
1.5 | 25.0 | 1.0 | 1.0 | 21.5 | 50.0 |
2.0 | 25.0 | 1.0 | 1.0 | 21.0 | 50.0 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
96 °C | 98 °C | 65 °C | 72 °C | -- |
5 min | 10 s | 15 s | 40 s | 30 cycles |
Sep 18
Restriction Enzyme Digestion
9/18Plux | SpeI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 3.2µL | 1µL | 1µL | 3µL | 3µL | 18.8µL | 30µL |
NC | 1.7µL | 0µL | 0µL | 1µL | 1µL | 6.3µL | 10µL |
9/18Pcon-pT181antisense-spinach-DT② | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 7.5µL | 1µL | 1µL | 3µL | 3µL | 14.5µL | 30µL |
NC | 1.4icro;L | 0µL | 0µL | 1µL | 1µL | 6.6µL | 10µL |
9/16 Plac② | SpeI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 13.8µL | 1µL | 1µL | 3µL | 3µL | 14.5µL | 30µL |
NC | 0.7µL | 0µL | 0µL | 1µL | 1µL | 7.3µL | 10µL |
9/16 Spinach-DT | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 17.6µL | 1µL | 1µL | 3µL | 3µL | 4.4µL | 30µL |
NC | 0.9µL | 0µL | 0µL | 1µL | 1µL | 7.1µL | 10µL |
9/8 Pcon J23100 | SpeI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 5.7µL | 1µL | 1µL | 3µL | 3µL | 16.3µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 1µL | 1µL | 7.7µL | 10µL |
9/16 RBS-lacZα-DT | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 8.4µL | 1µL | 1µL | 3µL | 3µL | 13.6µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 1µL | 1µL | 7.6µL | 10µL |
9/11 Pcon-pT181antisense-spinach-DT①: | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 7.2µL | 1µL | 1µL | 3µL | 3µL | 14.8µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 1µL | 1µL | 7.6µL | 10µL |
9/6 apt12-1R-DT | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 7.9µL | 1µL | 1µL | 3µL | 3µL | 14.1µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 1µL | 1µL | 7.6µL | 10µL |
9/3 pT181antisense | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 6.3µL | 1µL | 1µL | 3µL | 3µL | 15.7µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 1µL | 1µL | 7.7µL | 10µL |
9/14 pSB4K5 | EcoRI | SpeI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 7.3µL | 1µL | 1µL | 3µL | 3µL | 14.7µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 1µL | 1µL | 7.6µL | 10µL |
8/31 Plux-RBS-GFP-DT | EcoRI | SpeI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 9.2µL | 1µL | 1µL | 3µL | 3µL | 12.8µL | 30µL |
NC | 0.5µL | 0µL | 0µL | 1µL | 1µL | 7.5µL | 10µL |
9/12 RBS-lysis3-DT | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 5.2µL | 1µL | 1µL | 3µL | 3µL | 16.8µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 1µL | 1µL | 7.6µL | 10µL |
9/18 Pcon-pT181attenuator | EcoRI | SpeI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 14.3µL | 1µL | 1µL | 3µL | 3µL | 7.7µL | 30µL |
NC | 0.7µL | 0µL | 0µL | 1µL | 1µL | 7.3µL | 10µL |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | Plae② | SpeI | PstI |
2 | RBS-lysis3-DT | XbaI | PstI |
3 | Plux-RBS-GFP-DT | EcoRI | SpeI |
4 | PSB4K5 | EcoRI | SpeI |
5 | Pcon | SpeI | PstI |
6 | Plux | SpeI | PstI |
7 | 1kbp ladder | -- | -- |
8 | Plae② | -- | -- |
9 | RBS-lysis3-DT | -- | -- |
10 | Plux-RBS-GFP-DT | -- | -- |
11 | PSB4K5 | -- | -- |
12 | Pcon | -- | -- |
13 | Plux | -- | -- |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | Pcon pT181antisense spinach-DT② | XbaI | PstI |
3 | Spinach-DT | XbaI | PstI |
4 | RBS-lacZα-DT | XbaI | PstI |
5 | Pcon pT181antisense-Spinach-DT① | XbaI | PstI |
6 | aptamer12-1R-DT | XbaI | PstI |
7 | pT181attenuator | XbaI | PstI |
8 | Pcon attenuator | EcoRI | SpeI |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | Pcon pT181antisense spinach-DT② | XbaI | PstI |
3 | Spinach-DT | XbaI | PstI |
4 | RBS-lacZα-DT | XbaI | PstI |
5 | Pcon pT181antisense-Spinach-DT① | XbaI | PstI |
6 | apt12-1R-DT | XbaI | PstI |
7 | pT181attenuator | XbaI | PstI |
8 | Pcon attenuator | EcoRI | SpeI |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | Pcon pT181antisense spinach-DT② | -- | -- |
3 | Spinach-DT | -- | -- |
4 | RBS-lacZα-DT | -- | -- |
5 | Pcon pT181antisense-Spinach-DT① | -- | -- |
6 | apt12-1R-DT | -- | -- |
7 | pT181attenuator | -- | -- |
8 | Pcon attenuator | -- | -- |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ldder | -- |
2 | Plac② | SpeI+PstI |
3 | Plac② | SpeI+PstI |
4 | -- | -- |
5 | RBS-lysis3-DT | XbaI+PstI |
6 | RBS-lysis3-DT | XbaI+PstI |
7 | -- | -- |
8 | Plux-RBS-GFP-DT | EcoRI+SpeI |
9 | Plux-RBS-GFP-DT | EcoRi+SpeI |
10 | -- | -- |
11 | PSB4KS | EcoRI+SpeI |
12 | PSB4KS | EcoRI+SpeI |
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ldder | -- |
2 | Pcon | SpeI+PstI |
3 | Pcon | SpeI+PstI |
4 | -- | -- |
5 | Plux | SpeI+PStI |
6 | Plux | SpeI+PStI |
Lane | DNA | Enzyme |
---|---|---|
1 | Pcon PT181 antisense spinach-DT | XbaI+PstI |
2 | Pcon PT181 antisense Spinach-DT | XbaI+PstI |
3 | 100bp ladder | -- |
4 | Pcon PT181 antisense Spinach-DT | XbaI+PstI |
5 | Pcon PT181 antisense Spinach-DT | XbaI+PstI |
6 | 1kbp ladder | -- |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | apt12-1R-DT | XbaI+PstI |
3 | apt12-1R-DT | XbaI+PstI |
4 | -- | -- |
5 | PT181 attenuator | XbaI+PstI |
6 | PT181 attenuator | XbaI+PstI |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | Pcoa attenuator | EcoRI+PstI |
3 | Pcoa attenuator | EcoRI+PstI |
4 | -- | -- |
5 | RBS-lacZα-DT | XbaI+PstI |
6 | RBS-lacZα-DT | XbaI+PstI |
Sep 19
Sep 20
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/18 Plac (SpeI & PstI) | 3.0 µL | 9/18 RBS-lysis3-DT (XbaI & PstI) | 12.4 µL | 3.5 µL |
experiment | 9/12 Ptet-pT181 antisense | 1.0 µL | 9/18 spinach-DT | 11.9 µL | 3.5 µL |
experiment | 9/13 Pcon-RBS-luxR-DT | 2.1 µL | 9/10 Plux-RBS-GFP-DT | 5.6 µL | 3.5 µL |
experiment | 9/13 Pcon-pT181 attenuator (SpeI & PstI) | 2.0 µL | 9/18 aptamer 12-1R-DT (XbaI & PstI) | 6.3 µL | 3.5 µL |
experiment | 9/18 Plac ②(SpeI & PstI) | 3.0 µL | 9/18 aptamer 12-1R-DT(XbaI & PstI) | 4.5µL | x3.5 µL |
Transformation
Name | Sample | Competent Cells | Plate |
---|---|---|---|
9/17 pSB1C3-Pcon-pT181 attenuator-DT | 2 µL | 20 µL | CP |
9/17 pSB1C3-Pcon-aptamer 12_1R-DT | 2 µL | 20 µL | CP |
9/17 pSB1C3-Pcon-antisense-spinach-DT | 2 µL | 20 µL | CP |
9/17 pSB1C3-Pcon-RBS-tetR-DT x2 | 2 µL | 20 µL | CP |
9/14 pSB1C3-PkaiBC | 2 µL | 20 µL | CP |
9/14 pSB1C3-RpaB | 2 µL | 20 µL | CP |
9/16 pSB1C3-pT181 attenuator(EcoRI&SpeI) | 2 µL | 20 µL | CP |
9/17 pSB1C3-pT181 attenuator(XbaI&PstI) | 2 µL | 20 µL | CP |
9/17 pSB1C3-Pcon-spinach-DT | 2 µL | 20 µL | CP |
9/14 RBS-GFP-DT-PkaiBC | 2 µL | 20 µL | CP |
Plux-RBS-lysis3-DT | 2 µL | 20 µL | CP |
9/20 Ptet-pT181 antisense-spinach-DT | 2 µL | 20 µL | CP |
9/20 Pcon-spinach-DT(pSB4K5) | 2 µL | 20 µL | Kan |
9/20 Pcon-pT181 antisense-spinach-DT(pSB4K5) | 2 µL | 20 µL | Kan |
9/20 KaiABC | 2 µL | 20 µL | Kan |
9/20 KaiABC | 2 µL | 20 µL | Kan |
9/20 Plac-RBS-lysis3-DT | 2 µL | 20 µL | Amp |
9/20 Plac-aptamer 12_1R | 2 µL | 20 µL | Amp |
9/20 Plux-RBS-GFP-DT-Pcon-RBS-luxR-DT | 2 µL | 20 µL | Amp |
Plac-aptamer12_1R-DT | 2 µL | 20 µL | Amp |
9/20 Plac-aptamer12_1R-DT | 2 µL | 20 µL | Amp |
9/20Pcon-pT181attenuator-aptamer-DT | 2 µL | 20 µL | Amp |
9/17 Plac-pT181-attenuatorx2 | 2 µL | 20 µL | Amp |
9/15 Pcon-RBS-lacZα-DT | 2 µL | 20 µL | Amp |
9/14 Pcon-pT181attenuator-RBS-lacZα-DT | 2 µL | 20 µL | Amp |
PUC19 | 2 µL | 20 µL | Amp |
PCR
Sample | base pair |
---|---|
pT181 attenuator(pSB1C3) | -- |
Pcon-RBS-lacZα-DT | -- |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94 °C | 94 °C | 55 °C | 68 °C | -- |
5 min | 30 s | 30 s | 3 min | 30 cycles |
Electrophoresis
Lane | Sample | Enzyme |
---|---|---|
1 | Pcon-RBS-lacZα-DT | -- |
2 | 1kb ladder | -- |
3 | pSB1C3-pT181attenuator | -- |
Sep 21
Electrophoresis
Liquid Culture
Sample | medium |
---|---|
9/2 spinach-DT-2 | -- |
8/16 Plux-4 | -- |
8/27 Plux-RBS-GFP-DT-1 | -- |
9/5 Pcon-pT181 attenuator-1 | -- |
Master Plate
Number | Use LB plate |
---|---|
1 | 8/27 Pλ-luxI-1(+Amp) |
2 | 9/10 Plac(BBa-R0011)-3(+Amp) |
3 | 9/5 Pcon-RBS-tetR-DT-1(+Amp) |
4 | 9/5 Pcon-pT181 antisense-1(+Amp) |
5 | 9/15 Pcon-pT181 attenuator(+Amp) |
6 | 9/- Pcon-apt12_1R-DT-1(+Amp) |
7 | 9/5 Pcon-spinach-DT-3(+Amp) |
8 | 8/27 Pcon-RBS-GFP-DT-Pcon-RBS-luxR-DT(+Amp) |
Number | Use LB plate |
---|---|
1 | 9/4 pT181 antisense(pSB1C3)-1(+CP) |
2 | 9/11 Fusion1 antisense(pSB1C3)-4(+CP) |
3 | 9/11 Fusion6 antisense(pSB1C3)-1(+CP) |
4 | 9/4 pT181 attenuator(pSB1C3)-1(+CP) |
5 | 9/10 Fusion1 attenuator(pSB1C3)-1(+CP) |
6 | 9/11 Fusion3n2 attenuator(pSB1C3)-1(+CP) |
7 | 9/4 aptamer12_1R(pSB1C3)-1(+CP) |
8 | 9/11 aptamer12_P(pSB1C3)-3(+CP) |
9 | 9/11 aptamer12_1M(pSB1C3)-1(+CP) |
Number | Use LB plate |
---|---|
1 | 8/29 Pbad/araC-RBS-RFP-DT-1(+CP) |
2 | 9/4 RBS-lysis3-DT-3(+CP) |
3 | 9/10 Pcon-pT181 attenuator-DT-1(+CP) |
4 | 9/5 Ptet-pT181 antisense-1(+CP) |
5 | 9/4aptamer 12_1R-DT-1(+CP) |
6 | 9/5 Ptet-RBS-lacZα-DT-4(+CP) |
7 | 8/10 RBS-lacI-DT-2(+CP) |
8 | 8/29 Plux-RBS-GFP-DT-1(+CP) |
Restriction Enzyme Digestion
8/17 RBS-DT | EcoRI | SpeI | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2cuts(XbaI&PstI) | 8.1 | 0µL | 0µL | 1µL | 1µL | 3µL | 3µL | 13.9µL | 30µL |
NC | 0.4 | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.6µL | 10µL |
8/17 RBS-DT | EcoRI | SpeI | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2cut(EcoRI&XbaI) | 16.2 | 1µL | 1µL | 0µL | 0µL | 3µL | 3µL | 5.8µL | 30µL |
9/15 Pcon-pT181attenuator | EcoRI | SpeI | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2cuts(EcoRI&PstI) | 12 | 1µL | 0µL | 0µL | 1µL | 3µL | 3µL | 10µL | 30µL |
NC | 0.6 | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.4µL | 10µL |
8/20 Pcon=RBS-GFP-DT-1 | EcoRI | SpeI | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2cut(EcoRI&XbaI) | 6 | 1µL | 0µL | 1µL | 0µL | 3µL | 3µL | 0µL | 14µL |
NC | 0.3 | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.3µL | 10µL |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | RBS-GFP-DT | XbaI | PstI |
2 | RBS-GFP-DT | -- | -- |
3 | RBS-GFP-DT | EcoRI | XbaI |
4 | 1kbp ladder | -- | -- |
5 | Pcon-pT181attenuator | SpeI | PstI |
6 | Pcon-pT181attenuator | -- | -- |
7 | Pcon-RBs-GFP-DT | EcoRI | XbaI |
8 | Pcon-RBs-GFP-DT | -- | -- |
PCR
Sample | base pair |
---|---|
Pcon-apt12_1R-DT(E-1A) | 50 |
Pcon-spinach-DT(E-1A) | 402 |
Pcon-pT181 attenuator(E-1A) | 400 |
DT(1-3) | 65 |
tetR aptamer 12_1R-DT(1-3) | 283 |
Pcon-pT181 attenuator(1-SA) | 303 |
spinach-DT(2-1) | 338 |
Pcon-pT181 attenuator(E-0) | 403 |
Pcon-pT181 attenuator(2-SA) | 403 |
spinach-DT(3-2) | 395 |
Ptet-PT181 anisense | 400 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 57°C | 68°C | -- |
2min | 10s | 30s | 35s | 30cycles |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kb ladder | -- |
3 | RBS-GFP-DT | XbaI&PstI |
4 | RBS-GFP-DT | XbaI&PstI |
5 | RBS-GFP-DT | XbaI&PstI |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
RBS-GFP-DT(XbaI&PstI) | 14.8 | 1.74 | 0.47 |
RBS-GFP-DT(EcoRI&SpeI) | 88.4 | 1.85 | 1.49 |
Pcon-RBS-GFP-DT(EcoRI&XbaI) | 47.5 | 1.82 | 1.12 |
Sep 22
Colony PCR
Sample | base pair |
---|---|
9/20 Plac-PT181 attenuator(1~4) | 664 |
9/20 Plac-PT181 antisense(1~6) | 369 |
9/20 Pcon-PT181 attenuator-aptamer-DT(1~6) | 859 |
9/20 Pcon-PT181 antisense-spinach-DT(1~8) | 723 |
Electrophoresis
Lane | Sample |
---|---|
1 | Pcon-apt12_1R-DT(E-1A) |
2 | Pcon-spinach-DT(E-1A) |
3 | Pcon-pT181 attenuator(E-1A) |
4 | DT(1-3) |
5 | tetR aptamer 12_1R-DT(1-3) |
6 | 100bp ladder |
7 | Pcon-pT181 attenuator(1-SA) |
8 | spinach-DT(2-1) |
9 | Pcon-pT181 attenuator(E-0) |
10 | Pcon-pT181 attenuator(2-SA) |
11 | spinach-DT(3-2) |
12 | Ptet-PT181 anisense |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
9/21 spinach-DT | 197.9 | 1.67 | 1.54 |
9/21 Plux | 125.9 | 1.71 | 1.27 |
9/21 Plux-RBS-GFP-DT-(1) | 168.0 | 1.62 | 1.73 |
9/21 Pcon-PT181 attenuator-(1) | 368.3 | 1.57 | 1.62 |
9/21 RBS-GFP-DT | 532.8 | 1.75 | 1.78 |
9/21 Pcon-RBS-GFP-DT | 845.2 | 2.02 | 1.70 |
Colony PCR
Sample | base pair |
---|---|
9/20 Plux-RBS-GFP-DT-Pcon-RBS-luxR-DT-(1~2) | 283 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 2min10s | 30cycles |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2~4 | Pcon-aptamer12-1R-DT(E-1A) | -- |
6~8 | Pcon-spinach-DT(E-1A) | -- |
10~12 | Pcon-attenuator PT181(E-1A) | -- |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2~4 | DT(1-3) | -- |
6~8 | aptamer12-1RDT(1-3) | -- |
10~12 | Pcon-PT181 attenuator(1-5A) | -- |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Pcon-aptamer12-1R-DT(E-1A) | 31.2 | 1.87 | 0.30 |
Pcon-spinach-DT(E-1A) | 25.6 | 1.88 | 0.99 |
Pcon-attenuator PT181(E-1A) | 25.3 | 1.99 | 0.86 |
DT(1-3) | 22.1 | 1.82 | 0.20 |
aptamer12-1RDT(1-3) | 33.5 | 1.99 | 0.05 |
Pcon-PT181 attenuator(1-5A) | 36.9 | 1.12 | 0.96 |
Restriction Enzyme Digestion
9/16 Plac | XbaI | SpeI | PstI | BufferB | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|
2cuts | 12.5µL | 0µL | 1µL | 1µL | 3µL | 3µL | 9.5µL | 30µL |
NC | 0.8µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.4µL | 10µL |
9/22 Plux | XbaI | SpeI | PstI | BufferB | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|
2cuts | 16µL | 0µL | 1µL | 1µL | 3µL | 3µL | 14µL | 30µL |
NC | 0.8µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.2µL | 10µL |
9/20 RBS-tetR-2R-DT | XbaI | SpeI | PstI | BufferD | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|
2cuts | 8.5µL | 1µL | 0µL | 1µL | 3µL | 3µL | 13.5µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.6µL | 10µL |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2~4 | Pcon-attenuator PT181(E-0) | -- |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2~4 | Pcon-attenuator PT181(E-0) | -- |
Lane | DNA | Enzyme |
---|---|---|
2 | 100bp ladder | -- |
4~6 | Pcon-attenuator PT181(2-SA) | -- |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
3~5 | spinach-DT(3-2) | -- |
8~10 | Ptet-antisense PT181(1-3) | -- |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Pcon-attenuator PT181(E-0) | 2.4 | 1.80 | 0.17 |
Pcon-attenuator PT181(2-SA) | 10.8 | 1.85 | 0.54 |
spinach-DT(3-2) | 36.7 | 1.80 | 0.75 |
Ptet-antisense PT181(1-3) | 16.8 | 1.74 | 0.78 |
Colony PCR
Sample | base pair |
---|---|
9/20 Pcon-PT181 attenuator-aptamer12-1R-DT-(7~14) | 859 |
Colony PCR
Sample | base pair |
---|---|
PconPT181antisense-spinach-DT(9~15) | 723 |
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/13 Pcon-PT181 attenuator (SpeI & PstI) | 1.7 µL | 9/18 aptamer-1R-DT (XbaI & PstI) | 5.4µL | 3.5µL |
experiment | 9/12 Plac(SpeI & PstI) | 2.4 µL | 9/18 aptamer-1R-DT (XbaI & PstI) | 6.1µL | 3.5 µL |
experiment | 9/13 Ptet(SpeI & PstI) | 1.7 µL | 9/10 Plux-RBS-GFP-DT | 7.0 µL | 4.4 µL |
experiment | 9/21 RBS-GFP-DT (EcoRI & XbaI) | 0.6 µL | 9/18 aptamer 12-1R-DT (XbaI & PstI) | 5.6µL | 3.1 µL |
experiment | 9/13 PSB1C3(XbaI & PstI) | 1.9 µL | 9/16 PT181 attenuator(XbaI & PstI) | 4.6µL | 3.3 µL |
Liquid Culture
Sample | medium |
---|---|
9/20 Plac-antisense-1 | -- |
9/20 Plac-attenuator-1 | -- |
9/20 Plac-antisense-1 | -- |
9/20 Plac-attenuator-1 | -- |
digestion
9/8 Pcon-PT181 antisense | EcoRI | SpeI | BufferM | MilliQ | total | |
---|---|---|---|---|---|---|
2cuts | 8.3µL | 1µL | 1µL | 3µL | 16.7µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 1µL | 8.3µL | 10µL |
9/7 Pcon-RBS-tetR-DT | EcoRI | XbaI | SpeI | PstI | BufferD | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2cut | 14µL | 1µL | 1µL | 0µL | 0µL | 3µL | 3µL | 18.2µL | 30µL |
NC | 0.7µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.3µL | 10µL |
9/22 RBS-GFP-DT | EcoRI | XbaI | SpeI | PstI | BufferD | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|---|---|
2cuts | 3.8µL | 1µL | 1µL | 0µL | 0µL | 3µL | 3µL | 18.2µL | 30µL |
NC | 0.2µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.8µL | 10µL |
9/6 aptamer12-1R-DT | EcoRI | XbaI | SpeI | PstI | BufferD | BSA | MilliQ | |
---|---|---|---|---|---|---|---|---|
2cut | 8µL | 1µL | 1µL | 0µL | 0µL | 3µL | 3µL | 16µL |
NC | 0.4µL | 0µL | 0µL | 0µL | 0µL | 1µL | 1µL | 7.6µL |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | -- |
3~5 | Pcon-PT181 antisense (EcoRI&SpaI) | -- |
Transformation
Name | Sample | Competent Cells | Plate |
---|---|---|---|
9/20 Plac-aptamer12-1R-DT(XbaI&PstI) | 2 µL | 20 µL | Amp |
9/20 pT181 attenuator(1C3)(EcoRI&SpeI) | 2 µL | 20 µL | CP |
9/17 pT181 attenuator(1C3)(XbaI&PstI) | 2 µL | 20 µL | CP |
9/20 Pcon-pT181 attenuator(SpaI&PstI)+aptamer12-1R-DT(XbaI&PstI) | 2 µL | 20 µL | Amp |
kaiABC | 2 µL | 20 µL | Amp |
9/22 pSB1C3-RpaB(XbaI&PstI) | 2 µL | 20 µL | Amp |
9/22 pSB1C3-pT181 attenuator(XbaI&PstI) | 2 µL | 20 µL | Amp |
9/22 Ptet(SpaI&PstI)+RBS-GFP-DT(XbaI&PstI) | 2 µL | 20 µL | CP |
9/22 RBS-GFP-DT+Pcon-attenuator pT181 (EcoRI&SpeI) | 2 µL | 20 µL | CP |
9/22 pT181 attenuator(XbaI&PstI)(1C3) | 2 µL | 20 µL | CP |
PCR
Sample | base pair |
---|---|
Pcon-RBS-tetR-DT(1-2(A)) | -- |
Pcon-RBS-tetR-DT(3-2(A)) | -- |
Pcon-RBS-GFP-DT(1-S(A)) | -- |
Pcon-RBS-GFP-DT(2-S(A)) | -- |
Pcon-tetR-DT(E-2(A)) | -- |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94 °C | 94 °C | 57 °C | 68 °C | -- |
2 min | 10 s | 30 s | 1min5s | 30 cycles |
Electrophoresis
Lane | Sample |
---|---|
1 | 1kbp ladder |
2 | Pcon-RBS-tetR-DT(1-2Ⓐ) |
3 | Pcon-RBS-tetR-DT(3-2Ⓐ) |
4 | Pcon-RBS-GFP-DT(1-SⒶ) |
5 | Pcon-RBS-GFP-DT(2-SⒶ) |
6 | Pcon-tetR-DT(E-2Ⓐ) |
Sep 23
Transformation
Name | Sample | Competent Cells | Plate |
---|---|---|---|
9/14 pSB1C3+PkaiBC | 2 µL | 20 µL | -- |
9/14 pSB1C3+RpaB | 2 µL | 20 µL | -- |
9/14 pkaiBC+Rbs-GFP-DT | 2 µL | 20 µL | -- |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | |
3-4 | Pcon-RBS-tetR-PT |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Pcon-PT181 anti EcoRI+SpeI | 46.7 | 1.06 | 0.93 |
Pcon-RBS-tetR-DT EcoRI+XbaI | 119.3 | 0.99 | |
RBS-8FP-DT EcoRI+XbaI | 87.7 | 1.00 | 0.98 |
ap42_1R-DT EcoRI+XbaI | 68.8 | 1.32 | 1.03 |
Pcon-RBS-tetR-DT 1-2 A | 203.0 | 1.66 | 1.79 |
Pcon-RBS-tetR-DT 3-2 A | 67.7 | 2.64 | 1.28 |
Pcon-RBS-GFP-DT 1-S A | 185.6 | 1.88 | 2.04 |
Pcon-RBS-GFP-DT 2-S A | 298.6 | 1.68 | 1.55 |
Pcon-tetR-DT E-2 A | 202.4 | 1.57 | 1.66 |
PCR
genome DNA | KOD plus | 10x buffer | dNTP | MgSO4 | SasA_fwd primer | SasA_rev primer | MilliQ | total |
---|---|---|---|---|---|---|---|---|
9/8 Pcon-pT181 anti | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 15.5 | 25 |
8/20 Ptet(1) | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 15.5 | 25 |
9/16 Plac 2 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 15.5 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94 °C | 98 °C | 57 °C | 68 °C | -- |
2min | 10sec | 30sec | 20sec | 30cycles |
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/21 Pcon-RBS-GFP-DT EcoRI+XbaI | 47.5 µg/mL | 9/15 Pcon-RBS-tetR-DT EcoRI+SpeI | 59 µg/mL | 2.3 µg/mL |
experiment | 9/21 Pcon-RBS-GFP-DT EcoRI+XbaI | 47.5 µg/mL | 9/15 Pcon-apt12_1R-DT EcoRI+SpeI | 17 µg/mL | 2.4 µg/mL |
experiment | 9/21 Pcon-RBS-GFRDT EcoRI+XbaI | 2.1 µg/mL | 9/15 Pcon-DT181 attenuator-DT | 21 µg/mL | 3.0 µg/mL |
experiment | 9/22 apt 12_1R-DT EcoRI+XbaI | 67.8 µg/mL | 9/18 Pcon-DT181 attenuator EcoRI+SpeI | 5.7 µg/mL | 3.5 µg/mL |
experiment | 9/22RBS-GFP-DT EcoRI+XbaI | 87.7 µg/mL | 9/18 Pcon-DT18 attenuator EcoRI+SpeI | 6.7 µg/mL | 3.5 µg/mL |
experiment | 9/13 DT EcoRI+XbaI | 25.4 µg/mL | 9/22 Pcon-DT181 antisense EcoRI+SpeI | 46.8 µg/mL | 2.3 µg/mL |
PCR
genome DNA | KOD plus | 10x buffer | dNTP | MgSO4 | SasA_fwd primer | SasA_rev primer | MilliQ | total |
---|---|---|---|---|---|---|---|---|
Pcon-attenuator-DT (E-1A) | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 77.5 | 25 |
Pcon-attenuator-DT (2-1A) | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 77.5 | 25 |
Pcon-antisense-spinach-DT (1-2A) | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 77.5 | 25 |
Pcon-antisense-spinach-DT (E-1A) | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 77.5 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94 °C | 98 °C | 57 °C | 68 °C | -- |
2min | 10s | 30s | 45s | 30cycle |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
9/22 Plac-DT181 attenuator-1 | 204.0 | 2.00 | 1.95 |
9/22 Plac-DT181 attenuator-2 | 195.3 | 1.84 | 1.62 |
9/22 Plac-DT181 antisense-1 | 188.2 | 1.87 | 2.15 |
9/22 Plac-DT181 antisense-2 | 165.0 | 1.95 | 2.66 |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1,6 | 100bp ladder(Promega) | -- | -- |
2 | Pcon-attenuator-DT (E-1A) | -- | -- |
3 | Pcon-attenuator-DT (2-1A) | -- | -- |
4 | Pcon-antisense-spinach-DT (1-2A) | -- | -- |
5 | Pcon-antisense-spinach-DT (E-1A) | -- | -- |
Gel Extraction
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Pcon-pT181 attenuator-DT(E-1A) | 166.7 | 1.51 | 0.99 |
Pcon-pT181 attenuator-DT(2-1A) | 122.1 | 1.75 | 1.20 |
Pcon-pT181 antisense-spinach-DT(1-2A) | 99.1 | 1.86 | 1.81 |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | 9/8 Pcon-pT181 antisense(E-1A) | -- | -- |
3 | 8/20 Ptet(1)(2-S) | -- | -- |
4 | 9/16 Plac2(E-1A) | -- | -- |
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
pSB1C3 | 2µL | 20µL | 22µL |
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/19 Plac SpeI+PstI | 24.6 µg/mL | 9/18 ape12_1R-DT XbaI+PstI | 4.5 µg/mL | 2 µg/mL |
experiment | 9/21 RBS-GFP-DT EcoRI+XbaI | 88.4 µg/mL | 9/15 Pcon-pT181 attenuator EcoRI+SpeI | 21 µg/mL | 2 µg/mL |
experiment | 9/13 PSB1C3 XbaI+PstI | 26.0 µg/mL | 9/16 pT181 attenuator XbaI+PstI | 8.2 µg/mL | 2 µg/mL |
Colony PCR
Sample | base pair |
---|---|
9/22 Pcon-PT181 attenuator12-1R-DT(1~8) | -- |
9/22 Pcon-PT181 attenuator(1~4) | -- |
9/20 Plac+aptamer12-1R-DT(1~4) | -- |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 54s | 30cycle |
Sep 24
Electrophoresis
Lane | Sample |
---|---|
1 | 9/20 Pcon-pT181aptamer12-1R-DT 1 |
2 | 9/20 Pcon-pT181aptamer12-1R-DT 2 |
3 | 9/20 Pcon-pT181aptamer12-1R-DT 3 |
4 | 9/20 Pcon-pT181aptamer12-1R-DT 4 |
5 | 9/20 Pcon-pT181aptamer12-1R-DT 5 |
6 | 9/20 Pcon-pT181aptamer12-1R-DT 6 |
7 | 9/20 Pcon-pT181aptamer12-1R-DT 7 |
8 | 9/20 Pcon-pT181aptamer12-1R-DT 8 |
9 | 100bp ladder |
10 | 9/22 Pcon-pT181attenuator-aptamer12-1R-DT 1 |
11 | 9/22 Pcon-pT181attenuator-aptamer12-1R-DT 2 |
12 | 9/22 Pcon-pT181attenuator-aptamer12-1R-DT 3 |
13 | 9/22 Pcon-pT181attenuator-aptamer12-1R-DT 4 |
14 | 9/20 Plac-aptamer12-1R-DT 1 |
15 | 9/20 Plac-aptamer12-1R-DT 2 |
16 | 9/20 Plac-aptamer12-1R-DT 3 |
17 | 9/20 Plac-aptamer12-1R-DT 4 |
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
9/23 pSB1C3-pT181attenuator | 2 µL | 20 µL | 22 µL | LB (+CP) |
RBS-GFP-DT+Pcon-pT181attenuator | 2 µL | 20 µL | 22 µL | LB (+CP) |
9/23 Plac-+spinach-DT | 2 µL | 20 µL | 22 µL | LB (+Amp) |
9/23 Pcon-pT181attenuator-DT+Pcon-RBS-GFP-DT | 2 µL | 20 µL | 22 µL | LB (+Amp) |
9/23 Pcon-aptamer12-1R-DT+Pcon-RBS-GFP-DT | 2 µL | 20 µL | 22 µL | LB (+Amp) |
9/23 Pcon-RBS-tetR-DT+Pcon-RBS-GFP-DT | 2 µL | 20 µL | 22 µL | LB (+Amp) |
9/23 Pcon-pT181antisense-DT | 2 µL | 20 µL | 22 µL | LB (+CP) |
9/23 Pcon-pT181attenuator-RBS-GFP-DT | 2 µL | 20 µL | 22 µL | LB (+CP) |
9/23 Pcon-pT181attenuator-aptamer12-1R-DT | 2 µL | 20 µL | 22 µL | LB (+CP) |
PUC19 | 2 µL | 20 µL | 22 µL | LB (+Amp) |
Ptet-RBS-lacZα-DT | 2 µL | 20 µL | 22 µL | LB (+CP) |
pSB1C3 | 2 µL | 20 µL | 22 µL | LB (+CP) |
Liquid Culture
Sample | medium |
---|---|
aptamer12-1R-DT(Master plate) | LB(+CP) |
Restriction Enzyme Digestion(PCR product)
Concentrate PCR product by evaporator until volume become less than 1µL, add all sulution and pipetting.
10*cut smart buffer | BsaI-HF | MilliQ | total | |
---|---|---|---|---|
9/22 Pcon-pT181 attenuator (E-0) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/22 Pcon-pT181 attenuator (2-3A) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/22 spinach-DT(3-2) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/22 Ptet-pT181 antisense (1-3) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/22 Pcon-tet aptamer-DT (E-1A) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/22 Pcon-spinach-DT (E-1A) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/22 Pcon-pT181 attenuator (E-1A) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/22 DT (1-3) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/22 tet aptamer-DT (1-3) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/22 Pcon-pT181 attenuator (1-SA) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/22 Pcon-RBS-tetR-DT (1-2A) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/22 Pcon-RBS-tetR-DT (3-2A) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/22 Pcon-RBS-tetR-DT (E-2A) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/22 Pcon-RBS-GFP-DT (1-2A) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/22 Pcon-RBS-GFP-DT (2-SA) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/23 Pcon-pT181 attenuator-DT (E-1A) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/23 Pcon-pT181 attenuator-DT (0-1A) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/23 Pcon-pT181 antisense-spinach-DT (1-2A) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/23 Pcon-pT181 antisense (1-2A) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/23 Ptet-1 (2-S) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
9/23 Plac-2 (E-1A) | 2.0 µL | 0.3 µL | 17 µL | 19.3µL |
Column Refining
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
8/22 Pcon-pT181 attenuator(E-0) | 7.8 | 1.70 | 0.03 |
8/22 Pcon-pT181 attenuator(2-SA) | 17.3 | 1.93 | 0.03 |
8/22 spinach-DT (3-2) | 22.4 | 1.93 | 0.09 |
8/22 Ptet-PT181 anisense (1-3) | 18.3 | 1.58 | 0.14 |
8/22 Pcon-aptamer12_1R-DT (E-1A) | 8.2 | 2.10 | 0.05 |
8/22 Pcon-spinach-DT(E-1A) | 5.6 | 0.91 | 0.05 |
8/22 Pcon-pT181 attenuator(E-1A) | 18.5 | 1.80 | 0.12 |
8/22 DT(1-3) | 7.3 | 1.13 | 0.04 |
8/22 tetR aptamer 12_1R-DT(1-3) | 14.6 | 1.74 | 0.06 |
8/22 Pcon-pT181 attenuator(1-SA) | 7.9 | 1.57 | 0.04 |
8/22 Pcon-RBS-tetR-DT(1-2Ⓐ) | 41.6 | 1.81 | 0.25 |
8/22 Pcon-RBS-tetR-DT(3-2Ⓐ) | 30.2 | 1.75 | 0.15 |
8/22 Pcon-RBS-tetR-DT(E-2Ⓐ) | 36.9 | 1.75 | 0.56 |
8/22 Pcon-RBS-GFP-DT(1-SⒶ) | 43.5 | 1.83 | 0.33 |
8/22 Pcon-RBS-GFP-DT(2-SⒶ) | 64.6 | 1.82 | 0.30 |
8/23 Pcon-pT181 attenuator-DT (E-1A) | 31.2 | 1.83 | 0.09 |
8/23 Pcon-pT181 attenuator-DT (0-1A) | 64.5 | 1.80 | 0.43 |
8/23 Pcon-pT181 antisense-spinach-DT (1-2A) | 36.4 | 1.88 | 0.21 |
8/23 Pcon-pT181 antisense-spinach-DT (E-1A) | 27.9 | 1.92 | 0.16 |
8/23 Ptet(1)(2-S) | 37.0 | 1.91 | 0.16 |
9/23 Plac-2(E-1A) | 21.2 | 1.82 | 0.13 |
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
9/23 Pcon-attenuator-aptamer12-1R-DT | 2 µL | 20 µL | 22 µL | LB (+CP) |
9/23 pT181attenuator(1C3) | 2 µL | 20 µL | 22 µL | LB (+CP) |
9/23 Pcon-pT181antisense-DT | 2 µL | 20 µL | 22 µL | LB (+CP) |
9/23 Pcon-pT181attenuator-RBS--GFP-DT | 2 µL | 20 µL | 22 µL | LB (+CP) |
Liquid Culture
Sample | medium |
---|---|
pSB1C3 (Master plate-1) | LB(+CP) |
Restriction Enzyme Digestion
8/21 pT181attenuator (330 µg/mL) | XbaI | PstI | buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 6.1 | 1 | 1 | 3 | 3 | 15.9 | 30 |
NC | 0.3 | 0 | 0 | 1 | 1 | 7.7 | 10 |
9/22 Pcon-pT181attenuator (368.3 µg/mL) | EcoRI | SpeI | buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 5.4 | 1 | 1 | 3 | 0 | 19.6 | 30 |
NC | 0.3 | 0 | 0 | 1 | 0 | 8.7 | 10 |
9/16 pSB1C3 | EcoRI | SpeI | buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 18 | 1 | 1 | 3 | 0 | 7.0 | 30 |
NC | 0.9 | 0 | 0 | 1 | 0 | 8.1 | 10 |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 1kb ladder | - | - |
2 | pT181attenuator | XbaI | PstI |
3 | pT181attenuator | -- | -- |
4 | Pcon-pT181attenuator | EcoRI | SpeI |
5 | Pcon-pT181attenuator | -- | -- |
6 | pSB1C3 | EcoRI | SpeI |
7 | pSB1C3 | -- | -- |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
9/24 aptamer12-1R-DT | 144.7 | 1.03 | 1.21 |
Gel Extraction
Lane | DNA | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100kb ladder | -- | -- |
2 | pT181attenuator | XbaI | PstI |
3 | pT181attenuator | XbaI | PstI |
4 | pT181attenuator | XbaI | PstI |
5 | -- | -- | -- |
6 | Pcon-pT181attenuator | EcoRI | SpeI |
7 | Pcon-pT181attenuator | EcoRI | SpeI |
8 | Pcon-pT181attenuator | EcoRI | SpeI |
9 | -- | -- | -- |
10 | pSB1C3 | EcoRI | SpeI |
11 | pSB1C3 | EcoRI | SpeI |
12 | pSB1C3 | EcoRI | SpeI |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
pT181attenuator(XbaI&PstI) | 10.1 | 2.02 | 0.43 |
Pcon-pT181attenuator(EcoRI&SpeI) | 10.3 | 1.81 | 0.32 |
pSB1C3(EcoRI&SpeI) | 10.0 | 2.81 | 0.02 |
Colony PCR
Sample | base pair |
---|---|
9/23 Pcon-aptamer12-1R-DT+Pcon-RBS-GFP-DT 1 | 1414 |
9/23 Pcon-aptamer12-1R-DT+Pcon-RBS-GFP-DT 2 | 1414 |
9/23 Pcon-aptamer12-1R-DT+Pcon-RBS-GFP-DT 3 | 1414 |
9/23 Pcon-aptamer12-1R-DT+Pcon-RBS-GFP-DT 4 | 1414 |
9/23 Pcon-aptamer12-1R-DT+Pcon-RBS-GFP-DT 5 | 1414 |
9/23 Pcon-aptamer12-1R-DT+Pcon-RBS-GFP-DT 6 | 1414 |
9/23 Pcon-aptamer12-1R-DT+Pcon-RBS-GFP-DT 7 | 1414 |
9/23 Pcon-aptamer12-1R-DT+Pcon-RBS-GFP-DT 8 | 1414 |
9/23 Pcon-pT181attenuator-DT+Pcon-RBS-GFP-DT 1 | 1631 |
9/23 Pcon-pT181attenuator-DT+Pcon-RBS-GFP-DT 2 | 1631 |
9/23 Pcon-pT181attenuator-DT+Pcon-RBS-GFP-DT 3 | 1631 |
9/23 Pcon-pT181attenuator-DT+Pcon-RBS-GFP-DT 4 | 1631 |
9/23 Pcon-pT181attenuator-DT+Pcon-RBS-GFP-DT 5 | 1631 |
9/23 Pcon-pT181attenuator-DT+Pcon-RBS-GFP-DT 6 | 1631 |
9/23 Pcon-pT181attenuator-DT+Pcon-RBS-GFP-DT 7 | 1631 |
9/23 Pcon-pT181attenuator-DT+Pcon-RBS-GFP-DT 8 | 1631 |
9/23 Pcon-RBS-tetR-DT+Pcon-RBS-GFP-DT 1 | 2042 |
9/23 Pcon-RBS-tetR-DT+Pcon-RBS-GFP-DT 2 | 2042 |
9/23 Pcon-RBS-tetR-DT+Pcon-RBS-GFP-DT 3 | 2042 |
9/23 Pcon-RBS-tetR-DT+Pcon-RBS-GFP-DT 4 | 2042 |
9/23 Pcon-pT181antisense-DT 1 | 508 |
9/23 Pcon-pT181antisense-DT 2 | 508 |
9/23 Pcon-pT181antisense-DT 3 | 508 |
9/23 Pcon-pT181antisense-DT 4 | 508 |
9/23 Pcon-pT181antisense-DT 5 | 508 |
9/23 Pcon-pT181antisense-DT 6 | 508 |
9/23 Pcon-pT181antisense-DT 7 | 508 |
9/23 Pcon-pT181antisense-DT 8 | 508 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94 °C | 94 °C | 55 °C | 68 °C | -- |
5 min | 30 sec | 30 sec | 2min | 30 cycles |
Lane | Sample |
---|---|
1 | 9/23 Pcon-aptamer12-1R-DT+Pcon-RBS-GFP-DT 1 |
2 | 9/23 Pcon-aptamer12-1R-DT+Pcon-RBS-GFP-DT 2 |
3 | 9/23 Pcon-aptamer12-1R-DT+Pcon-RBS-GFP-DT 3 |
4 | 9/23 Pcon-aptamer12-1R-DT+Pcon-RBS-GFP-DT 4 |
5 | 9/23 Pcon-aptamer12-1R-DT+Pcon-RBS-GFP-DT 5 |
6 | 9/23 Pcon-aptamer12-1R-DT+Pcon-RBS-GFP-DT 6 |
7 | 9/23 Pcon-aptamer12-1R-DT+Pcon-RBS-GFP-DT 7 |
8 | 9/23 Pcon-aptamer12-1R-DT+Pcon-RBS-GFP-DT 8 |
9 | 1kb ladder |
10 | 9/23 Pcon-pT181attenuator-DT+Pcon-RBS-GFP-DT 1 |
11 | 9/23 Pcon-pT181attenuator-DT+Pcon-RBS-GFP-DT 2 |
12 | 9/23 Pcon-pT181attenuator-DT+Pcon-RBS-GFP-DT 3 |
13 | 9/23 Pcon-pT181attenuator-DT+Pcon-RBS-GFP-DT 4 |
14 | 9/23 Pcon-pT181attenuator-DT+Pcon-RBS-GFP-DT 5 |
15 | 9/23 Pcon-pT181attenuator-DT+Pcon-RBS-GFP-DT 6 |
16 | 9/23 Pcon-pT181attenuator-DT+Pcon-RBS-GFP-DT 7 |
17 | 9/23 Pcon-pT181attenuator-DT+Pcon-RBS-GFP-DT 8 |
Lane | Sample |
---|---|
1 | 9/23 Pcon-RBS-tetR-DT+Pcon-RBS-GFP-DT 1 |
2 | 9/23 Pcon-RBS-tetR-DT+Pcon-RBS-GFP-DT 2 |
3 | 9/23 Pcon-RBS-tetR-DT+Pcon-RBS-GFP-DT 3 |
4 | 9/23 Pcon-RBS-tetR-DT+Pcon-RBS-GFP-DT 4 |
5 | 9/23 Pcon-pT181antisense-DT 1 |
6 | 9/23 Pcon-pT181antisense-DT 2 |
7 | 1kb ladder |
8 | 9/23 Pcon-pT181antisense-DT 3 |
9 | 9/23 Pcon-pT181antisense-DT 4 |
10 | 9/23 Pcon-pT181antisense-DT 5 |
11 | 9/23 Pcon-pT181antisense-DT 6 |
12 | 9/23 Pcon-pT181antisense-DT 7 |
13 | 9/23 Pcon-pT181antisense-DT 8 |
14 | -- |
Restriction Enzyme Digestion
9/24 aptamer12-1R-DT | EcoRI | XbaI | buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 17.5µL | 1.0µL | 1.0µL | 3.0µL | 3.0µL | 4.5µL | 30µL |
NC | 0.9µL | 0µL | 0µL | 1.0µL | 1.0µL | 7.1µL | 10µL |
9/20 Ptet | SpeI | PstI | buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 9.5µL | 1.0µL | 1.0µL | 3.0µL | 0µL | 15.5µL | 30µL |
NC | 0.5µL | 0µL | 0µL | 1.0µL | 0µL | 8.5µL | 10µL |
9/22 RBS-GFP-DT | EcoRI | SpeI | buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 3.8µL | 1.0µL | 1.0µL | 3.0µL | 0µL | 21.2µL | 30µL |
NC | 0.2µL | 0µL | 0µL | 1.0µL | 0µL | 8.8µL | 10µL |
9/22 Pcon-RBS-GFP-DT | EcoRI | XbaI | buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 2.4µL | 1.0µL | 1.0µL | 3.0µL | 3.0µL | 19.6µL | 30µL |
NC | 0.1µL | 0µL | 0µL | 1.0µL | 1.0µL | 7.9µL | 10µL |
9/22 Pcon-pT181attenuator 1 | EcoRI | XbaI | buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 5.4µL | 1.0µL | 1.0µL | 3.0µL | 3.0µL | 16.6µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 1.0µL | 1.0µL | 7.7µL | 10µL |
9/22 RBS-GFP-DT | XbaI | PstI | buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 3.8µL | 1.0µL | 1.0µL | 3.0µL | 3.0µL | 18.2µL | 30µL |
NC | 0.2µL | 0µL | 0µL | 1.0µL | 1.0µL | 7.8µL | 10µL |
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/22 aptamer12-1R-DT(EcoRI&XbaI) | 1.4 µL | 9/24 Pcon-pT181attenuator(EcoRI&SpeI) | 26 µL | 3.5 µL |
experiment | 9/4 Ptet(SpeI&PstI) | 2.0 µL | 9/21 RBS-GFP-DT(XbaI&PstI) | 9.0 µL | 3.5 µL |
- incubated at 37 °C for 1 hour.
colony PCR
Sample | base pair |
---|---|
9/23 Pcon-RBS-tetR-DT-Pcon-RBS-GFP-DT 5 | 2042bp |
9/23 Pcon-RBS-tetR-DT-Pcon-RBS-GFP-DT 6 | 2042bp |
9/23 Pcon-RBS-tetR-DT-Pcon-RBS-GFP-DT 7 | 2042bp |
9/23 Pcon-RBS-tetR-DT-Pcon-RBS-GFP-DT 8 | 2042bp |
9/23 Pcon-RBS-tetR-DT-Pcon-RBS-GFP-DT 9 | 2042bp |
9/23 Pcon-RBS-tetR-DT-Pcon-RBS-GFP-DT 10 | 2042bp |
9/23 Pcon-RBS-tetR-DT-Pcon-RBS-GFP-DT 11 | 2042bp |
9/23 Pcon-RBS-tetR-DT-Pcon-RBS-GFP-DT 12 | 2042bp |
9/23 Pcon-pT181antisense-DT 9 | 508bp |
9/23 Pcon-pT181antisense-DT 10 | 508bp |
9/23 Pcon-pT181antisense-DT 11 | 508bp |
9/23 Pcon-pT181antisense-DT 12 | 508bp |
9/23 Pcon-pT181antisense-DT 13 | 508bp |
9/24 Pcon-pT181attenuator-RBS-GFP-DT 1 | 1527bp |
9/24 Pcon-pT181attenuator-RBS-GFP-DT 2 | 1527bp |
9/24 Pcon-pT181attenuator-RBS-GFP-DT 3 | 1527bp |
9/24 Pcon-pT181attenuator-RBS-GFP-DT 4 | 1527bp |
9/24 Pcon-pT181attenuator-aptamer12-1R-DT 1 | 859bp |
9/24 Pcon-pT181attenuator-aptamer12-1R-DT 2 | 859bp |
9/24 Pcon-pT181attenuator-aptamer12-1R-DT 3 | 859bp |
9/24 Pcon-pT181attenuator-aptamer12-1R-DT 4 | 859bp |
9/24 pT181attenuator(pSB1C3) 1 | 390bp |
9/24 pT181attenuator(pSB1C3) 2 | 390bp |
9/24 pT181attenuator(pSB1C3) 3 | 390bp |
9/24 pT181attenuator(pSB1C3) 4 | 390bp |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 2min | 30cycle |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
pSB1C3 | 183.9 | 1.91 | 1.59 |
Pcon-pT181attenuator-aptamer12-1R-DT | 231.7 | 1.82 | 2.35 |
Plac-aptamer12-1R-DT | 208.9 | 1.98 | 1.79 |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 1kb ladder | -- | -- |
2 | 9/24 aptamer12-1R-DT | EcoRI | XbaI |
3 | 9/24 aptamer12-1R-DT | -- | -- |
4 | 9/24 Ptet | SpeI | PstI |
5 | 9/24 Ptet | -- | -- |
6 | 9/24 RBS-GFP-DT | EcoRI | SpeI |
7 | 9/24 RBS-GFP-DT | -- | -- |
8 | 9/24 Pcon-RBS-GFP-DT | EcoRI | XbaI |
8 | 9/24 Pcon-RBS-GFP-DT | -- | -- |
9 | 9/24 Pcon-RBS-GFP-DT | -- | -- |
10 | 9/24 Pcon-pT181attenuator 1 | EcoRI | XbaI |
11 | 9/24 Pcon-pT181attenuator 1 | -- | -- |
12 | 9/24 RBS-GFP-DT | XbaI | PstI |
13 | 9/24 RBS-GFP-DT | -- | -- |
14 | 1kb ladder | -- | -- |
Gel Extraction
Lane | DNA | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 1kb ladder | -- | -- |
2 | aptamer12-1R-DT | EcoRI | XbaI |
3 | aptamer12-1R-DT | EcoRI | XbaI |
4 | aptamer12-1R-DT | EcoRI | XbaI |
5 | -- | -- | -- |
6 | Ptet | SpeI | PstI |
7 | Ptet | SpeI | PstI |
8 | Ptet | SpeI | PstI |
9 | -- | -- | -- |
10 | RBS-GFP-DT | EcoRI | SpeI |
11 | RBS-GFP-DT | EcoRI | SpeI |
12 | RBS-GFP-DT | EcoRI | SpeI |
Lane | DNA | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 1kb ladder | -- | -- |
2 | Pcon-RBS-GFP-DT | EcoRI | XbaI |
3 | Pcon-RBS-GFP-DT | EcoRI | XbaI |
4 | Pcon-RBS-GFP-DT | EcoRI | XbaI |
5 | -- | -- | -- |
6 | Pcon-pT181attenuator | EcoRI | XbaI |
7 | Pcon-pT181attenuator | EcoRI | XbaI |
8 | Pcon-pT181attenuator | EcoRI | XbaI |
9 | -- | -- | -- |
10 | RBS-GFP-DT | XbaI | PstI |
11 | RBS-GFP-DT | XbaI | PstI |
12 | RBS-GFP-DT | XbaI | PstI |
Electrophoresis
1
Lane | Sample |
---|---|
1 | 1kb ladder |
2 | Pcon-RBS-tetR-DT-Pcon-RBS-GFP-DT 5 |
3 | Pcon-RBS-tetR-DT-Pcon-RBS-GFP-DT 6 |
4 | Pcon-RBS-tetR-DT-Pcon-RBS-GFP-DT 7 |
5 | Pcon-RBS-tetR-DT-Pcon-RBS-GFP-DT 8 |
6 | Pcon-RBS-tetR-DT-Pcon-RBS-GFP-DT 9 |
7 | Pcon-RBS-tetR-DT-Pcon-RBS-GFP-DT 10 |
8 | 1kb ladder |
2
Lane | Sample |
---|---|
1 | 1kb ladder |
2 | Pcon-RBS-tetR-DT-Pcon-RBS-GFP-DT 11 |
3 | Pcon-RBS-tetR-DT-Pcon-RBS-GFP-DT 12 |
4 | Pcon-pT181attenuator-RBS-GFP-DT 1 |
5 | Pcon-pT181attenuator-RBS-GFP-DT 2 |
6 | Pcon-pT181attenuator-RBS-GFP-DT 3 |
7 | Pcon-pT181attenuator-RBS-GFP-DT 4 |
8 | 1kb ladder |
3
Lane | Sample |
---|---|
1 | Pcon-pT181antisense-DT 9 |
2 | Pcon-pT181antisense-DT 10 |
3 | Pcon-pT181antisense-DT 11 |
4 | Pcon-pT181antisense-DT 12 |
5 | Pcon-pT181antisense-DT 13 |
6 | 100bp ladder |
7 | Pcon-pT181attenuator-aptamer12-1R-DT 1 |
8 | Pcon-pT181attenuator-aptamer12-1R-DT 2 |
4
Lane | Sample |
---|---|
1 | Pcon-pT181attenuator-aptamer12-1R-DT 3 |
2 | Pcon-pT181attenuator-aptamer12-1R-DT 4 |
3 | 100bp ladder |
4 | pT181attenuator(pSB1C3) 1 |
5 | pT181attenuator(pSB1C3) 2 |
6 | pT181attenuator(pSB1C3) 3 |
7 | pT181attenuator(pSB1C3) 4 |
Ligation
state | Vector | Inserter1 | Inserter2 | Inserter3 | Inserter4 | (NEB)T4ligase | (NEB)Buffer | milliQ | total | |||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
experiment | RBS-GFP-DT(pSB1C3) | 1µL | tetR-aptamer12-1R-DT(1-3) | 1 µL | Ptet(2-S) | 0.3µL | Pcon-tetR-aptamer12-1R-DT(3-2A) | 1.1µL | Plac(E-1A) | 0.5µL | 0.5µL | 0.5µL | 0.2 µL | 5µL |
experiment | RBS-GFP-DT(pSB1C3) | 1µL | Pcon-pT181attenuator(E-1A) | 1 µL | Pcon-tetR-aptamer12-1R-DT(1-2A) | 1µL | Ptet(2-S) | 0.3µL | -- | -- | 0.5µL | 0.5µL | 0.7 µL | 5µL |
experiment | RBS-GFP-DT(pSB1C3) | 1µL | Pcon-tetRaptamer12-1R-DT(E-1A) | 2µL | Pcon-tetRaptamer12-1R-DT(1-2A) | 1µL | Ptet(2-S) | 0.3µL | -- | -- | 0.5µL | 0.5µL | 0 µL | 5.3µL |
experiment | RBS-GFP-DT(pSB1C3) | 1µL | Pcon-spinach-DT(E-1A) | 3µL | Pcon-tetRaptamer12-1R-DT(1-2A) | 1µL | Ptet(2-S) | 0.3µL | -- | -- | 0.5µL | 0.5µL | 0 µL | 6.3µL |
experiment | RBS-GFP-DT(pSB1C3) | 1µL | Pcon-pT181antisense-DT(E-1A) | 0.5µL | DT(1-3) | 2µL | Ptet(2-S) | 0.3µL | Pcon-tetRaptamer12-1R-DT(3-2A) | 1.1µL | 0.5µL | 0.5µL | 0.1 µL | 5µL |
experiment | RBS-GFP-DT(pSB1C3) | 1µL | Pcon-pT181attenuator(E-1A) | 1µL | tetRaptamer12-1R-DT(1-3) | 1µL | Ptet(2-S) | 0.3µL | Pcon-tetRaptamer12-1R-DT(3-2A) | 1.1µL | 0.5µL | 0.5µL | 0µL | 5.4µL |
experiment | RBS-GFP-DT(pSB1C3) | 1µL | Ptet(2-S) | 0.3µL | Pcon-tetRaptamer12-1R-DT(E-2A) | 1µL | -- | -- | -- | -- | 0.5µL | 0.5µL | 1.7µL | 5µL |
experiment | RBS-GFP-DT(pSB1C3) | 1µL | Pcon-GFP-DT(2-SA) | 0.5µL | 1µL | -- | -- | -- | -- | -- | 0.5µL | 0.5µL | 1.5µL | 5µL |
experiment | RBS-GFP-DT(pSB1C3) | 1µL | Pcon-tetRaptamer12-1R-DT(E-1A) | 2µL | Pcon-pT181attenuator(1-SA) | 2.1µL | -- | -- | -- | -- | 0.5µL | 0.5µL | 0µL | 6.1µL |
experiment | RBS-GFP-DT(pSB1C3) | 1µL | Pcon-pT181attenuator-DT(E-1A) | 1µL | Pcon-pT181attenuator(1-SA) | 2.1µL | -- | -- | -- | -- | 0.5µL | 0.5µL | 0µL | 5.1µL |
experiment | RBS-GFP-DT(pSB1C3) | 1µL | Pcon-tetR12-1R-DT(E-1A) | 2µL | Pcon-GFP-DT(2-SA) | 0.5µL | spinach-DT(3-2) | 1µL | Ptet-pT181antisense(1-3) | 1µL | 0.5µL | 0.5µL | 0µL | 6.5µL |
experiment | RBS-GFP-DT(pSB1C3) | 1µL | Pcon-tetRaptamer12-1R-DT(E-1A) | 2µL | Pcon-pT181antisense(1-2A) | 0.7µL | Pcon-pT181attenuator(2-SA) | 2.1µL | -- | -- | 0.5µL | 0.5µL | 0µL | 6.8µL |
experiment | RBS-GFP-DT(pSB1C3) | 1µL | Pcon-tetRaptamer12-1R-DT(E-1A) | 2µL | Pcon-pT181attenuator(2-SA) | 2.1µL | Spinach-DT(3-2) | 1µL | Ptet-pT181antisense(1-3) | 1µL | 0.5µL | 0.5µL | 0µL | 8.1µL |
Concentrate total (more than 5µL) by evaporater until volume become less than 5 µL
PCR
genome DNA | KOD plus | 10x buffer | dNTP | MgSO4 | F primer | R primer | KOD-plus | MilliQ | total |
---|---|---|---|---|---|---|---|---|---|
Pcon antisense(1C3-GGE-fwd,1A2-GG2-rev) | 1µL | 2.5µL | 2.5µL | 1.5µL | 0.75µL | 0.75µL | 0.5µL | 15.5 | 25µL |
DT-(1C3-GG1-fwd,1C3-GG2-rev) | 1µL | 2.5µL | 2.5µL | 1.5µL | 0.75µL | 0.75µL | 0.5µL | 15.5 | 25µL |
Spinach-DT-(1C3-GG1-fwd,1C3-GG2-rev) | 1µL | 2.5µL | 2.5µL | 1.5µL | 0.75µL | 0.75µL | 0.5µL | 15.5 | 25µL |
Pcon-antisense-spinach-DT(1C3-GGE-fwd,1A2-GG1-rev) | 1µL | 2.5µL | 2.5µL | 1.5µL | 0.75µL | 0.75µL | 0.5µL | 15.5 | 25µL |
Ptet(1C3-GGE-fwd,1C3-GG0-rev) | 1µL | 2.5µL | 2.5µL | 1.5µL | 0.75µL | 0.75µL | 0.5µL | 15.5 | 25µL |
Pcon attenuator(1C3-GGE-fwd,1C3-GG0-rev) | 1µL | 2.5µL | 2.5µL | 1.5µL | 0.75µL | 0.75µL | 0.5µL | 15.5 | 25µL |
DT(1C3-GG2-fwd,1C3-GG1-rev) | 1µL | 2.5µL | 2.5µL | 1.5µL | 0.75µL | 0.75µL | 0.5µL | 15.5 | 25µL |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 57°C | 68°C | -- |
2min | 10sec | 30sec | 36sec | 30 |
Sep 25
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 100bp ladder | -- | -- |
2 | Pcon-antisense (1C3-66E-fwd A2-662 rev) | -- | -- |
3 | DT (1C3-661-fwd 1C3 662 rev) | -- | -- |
4 | spinach-DT(1C3-661-fwd 1C3 662 rev) | -- | -- |
5 | Pcon-antisense-spinach-DT(1C3-66E fwd A2-661 rev) | -- | -- |
6 | 100bp ladder | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
2 | 100bp ladder | -- | -- |
3 | Ptet (1C3 66E fwd-1C3 660 rev) | -- | -- |
4 | Pcon-attenuator(1C3-660 fwd A2-661 rev) | -- | -- |
5 | DT(1C3 662 fwd-1C3 661 rev) | -- | -- |
6 | Pcon-attenuator-aptamer-DT(1C3 66E fwd-A2-661-rev) | -- | -- |
7 | 100bp ladder | -- | -- |
Colony PCR
Sample | base pair |
---|---|
9/23 Pcon-PT181 attenuator-aptamer12-1R-DT-(5~12) | 859 |
9/23 Pcon-PT181 attenuator-RBS-GFP-DT-(5~8) | 1527 |
9/23 Pcon-PT181 attenuator-pSB1C3-(5~8) | 601 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94 °C | 94 °C | 55 °C | 68 °C | -- |
2 min | 30 s | 30 s | 1min5s | 30 cycles |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | Pcon-PT181 attenuator-aptamer12-1R-DT-5 | -- | -- |
2 | Pcon-PT181 attenuator-aptamer12-1R-DT-6 | -- | -- |
3 | Pcon-PT181 attenuator-aptamer12-1R-DT-7 | -- | -- |
4 | Pcon-PT181 attenuator-aptamer12-1R-DT-8 | -- | -- |
5 | Pcon-PT181 attenuator-aptamer12-1R-DT-9 | -- | -- |
6 | Pcon-PT181 attenuator-aptamer12-1R-DT-10 | -- | -- |
7 | Pcon-PT181 attenuator-aptamer12-1R-DT-11 | -- | -- |
8 | Pcon-PT181 attenuator-aptamer12-1R-DT-12 | -- | -- |
9 | 1kbp ladder | -- | -- |
10 | Pcon-PT181 attenuator-RBS-GFP-DT-5 | -- | -- |
11 | Pcon-PT181 attenuator-RBS-GFP-DT-6 | -- | -- |
12 | Pcon-PT181 attenuator-RBS-GFP-DT-7 | -- | -- |
13 | Pcon-PT181 attenuator-RBS-GFP-DT-8 | -- | -- |
14 | Pcon-PT181 attenuator-pSB1C3-5 | -- | -- |
15 | Pcon-PT181 attenuator-pSB1C3-6 | -- | -- |
16 | Pcon-PT181 attenuator-pSB1C3-7 | -- | -- |
17 | Pcon-PT181 attenuator-pSB1C3-8 | -- | -- |
Transformation
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
Plac+tet aptamer12+Pcon tetR-DT+Ptet+RBS-GFP-DT | 1µL | 10µL | 11µL | -- |
Pcon-pT181attenuator-DT+Pcon-tetR-DT+Ptet+RBS-GFP-DT | 1µL | 10µL | 11µL | -- |
Pcon-tet aptamer12-DT+Pcon-tetR-DT+Ptet+RBS-GFP-DT | 1µL | 10µL | 11µL | -- |
Pcon-Spinach-DT+Pcon-tetR-DT+Ptet+RBS-GFP-DT | 1µL | 10µL | 11µL | -- |
Pcon-pT181antisense+DT+Pcon-tetR-DT+Ptet+RBS-GFP-DT | 1µL | 10µL | 11µL | -- |
Pcon-pT181attenuator+tet aptamer12-DT+Pcon-tetR-DT+Ptet+RBS-GFP-DT | 1µL | 10µL | 11µL | -- |
Pcon tetR-DT+Ptet+RBS-GFP-DT | 1µL | 10µL | 11µL | -- |
Pcon tetR-DT+Pcon-GFP-DT+RBS-GFP-DT | 1µL | 10µL | 11µL | -- |
Pcon-tet aptamer12-DT+Pcon-pT181attenuator+RBS-GFP-DT | 1µL | 10µL | 11µL | -- |
Pcon-pT181attenuator-DT+Pcon-pT181attenuator+RBS-GFP-DT | 1µL | 10µL | 11µL | -- |
Pcon-tet aptamer12-DT+Ptet-pT181antisense+Spinach-DT+Pcon-RBS-GFP-DT+RBS-GFP-DT | 1µL | 10µL | 11µL | -- |
Pcon-tet aptamer12-DT+Pcon-pT181antisense+Spinach-DT+Pcon-pT181attenuator+RBS-GFP-DT | 1µL | 10µL | 11µL | -- |
Pcon-tet aptamer12-DT+Ptet-pT181antisense+Spinach-DT+Pcon-pT181attenuator+RBS-GFP-DT | 1µL | 10µL | 11µL | -- |
Name | Sample | Competent Cells | Total | Plate |
---|---|---|---|---|
aptamer12-DT(EcoRI+XbaI)+Pcon-pT181attenuator(EcoRI+SpeI) | 2µL | 20µL | 22µL | -- |
Ptet(SpeI+PstI)+RBS-GFP-DT(XbaI+PstI)) | 2µL | 20µL | 22µL | -- |
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/25 aptamer12_1R-DT(EcoRI&XbaI) | 4.5 µL | Pcon-pT181 attenuator(EcoRI&SpeI) | 7.7 µL | 6.1 µL |
experiment | 9/17 pSB1C3(EcoRI&SpeI) | 2.0 µL | 9/3 pT181 attenuator(EcoRI&SpeI) | 14 µL | 8 µL |
experiment | 9/25 Pcon-pT181 attenuator(EcoRI&XbaI) | 4.5 µL | 9/25 RBS-GFP-DT(EcoRI&SpeI) | 19.3 µL | 11.9 µL |
experiment | 9/25 Pcon-RBS-GFP-DT(EcoRI&XbaI) | 4.2 µL | Pcon-RBS-tetR-DT(EcoRI&SpeI) | 20 µL | 12.1 µL |
Restriction Enzyme Digestion
9/24 Pcon-attenuator-aptamer-DT(µL) | EcoRI(µL) | SpeI(µL) | Buffer(µL) | MilliQ(µL) | total(µL) | |
---|---|---|---|---|---|---|
2 cuts | 8.6 | 1 | 1 | 3 | 16.4 | 30 |
NC | 0.4 | 0 | 0 | 1 | 8.6 | 10 |
9/11 DT(µL) | EcoRI(µL) | XbaI(µL) | Buffer(µL) | BSA(µL) | MilliQ(µL) | total(µL) | |
---|---|---|---|---|---|---|---|
2 cuts | 10.4 | 1 | 1 | 3 | 3 | 11.6 | 30 |
NC | 0.5 | 0 | 0 | 1 | 1 | 7.5 | 10 |
Liquid Culture
Sample | medium |
---|---|
DT | -- |
pT181attenuator | -- |
Pcon-RBS-tetR-DT | -- |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
2 | Pcon-pT181antisense | -- |
3 | ||
4 | ||
5 | -- | -- |
6 | DT | -- |
7 | ||
8 | ||
9 | -- | -- |
10 | Spinach-DT | -- |
11 | ||
12 |
Lane | DNA | Enzyme |
---|---|---|
1 | 100bp ladder | -- |
3 | Pcon-antisense-spinach-DT(E-1A) | -- |
4 | Pcon-antisense-spinach-DT(E-1A) | -- |
5 | Pcon-antisense-spinach-DT(E-1A) | -- |
Lane | DNA | Enzyme |
---|---|---|
7 | 100bp ladder | -- |
9 | Ptet(E-0) | -- |
10 | Ptet(E-0) | -- |
11 | Ptet(E-0) | -- |
Lane | DNA | Enzyme |
---|---|---|
13 | 100bp ladder | -- |
15 | Pcon-attenuator(0-1A) | -- |
16 | Pcon-attenuator(0-1A) | -- |
17 | Pcon-attenuator(0-1A) | -- |
Lane | DNA | Enzyme |
---|---|---|
19 | 100bp ladder | -- |
21 | Pcon-attenuator-aptamer-DT(E-1A) | -- |
22 | Pcon-attenuator-aptamer-DT(E-1A) | -- |
23 | Pcon-attenuator-aptamer-DT(E-1A) | -- |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
DT(2-1) | 24.9 | 1.73 | 0.37 |
Ptet(E-0) | 12.8 | 1.59 | 0.90 |
Pcon-antisense(E-2A) | 16.5 | 1.72 | 1.07 |
Pcon-attenuator-aptamer-DT(E-1A) | 22.1 | 1.75 | 0.94 |
Pcon-antisense-spinach-DT(E-1A) | 31.0 | 1.78 | 1.15 |
spinach-DT(1-2) | 23.4 | 1.85 | 1.11 |
Pcon-attenuator(0-1A) | 22.5 | 1.76 | 0.46 |
DT(1-2) | 25.1 | 1.78 | 1.21 |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 1kbp ladder | -- | -- |
2 | Pcon-pT181 attenuator-aptamer 12_1R-DT | EcoRI | SpeI |
3 | Pcon-pT181 attenuator-aptamer 12_1R-DT | -- | -- |
4 | DT | EcoRI | XbaI |
5 | DT | -- | -- |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | DT | EcoRI+XbaI |
2 | DT | EcoRI+XbaI |
3 | Pcon-pT181 attenuator-aptamer12_1R-DT | EcoRI+SpeI |
4 | Pcon-pT181 attenuator-aptamer12_1R-DT | EcoRI+SpeI |
5 | Pcon-pT181 attenuator-aptamer12_1R-DT | EcoRI+SpeI |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Pcon-pT181 attenuator-aptamer12_1R-DT(EcoRI&SpeI) | 11.8 | 1.80 | 0.46 |
DT(EcoRI+XbaI) | 42.6 | 1.84 | 0.98 |
Liquid Culture
Sample | medium |
---|---|
Pcon-pT181anntisense-spinach-DT(4k5) | - |
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/24 pSB1C3(EcoRI+Spel) | 10µL | 9/25 PconpT181attenuator-aptamer12-1R-DT(EcoRI+Spel) | 5.9µL | 8µL |
PCR
800pg/μL DT | KOD plus | 10x buffer | dNTP | MgSO4 | 1C3_GG2_fwd | iC3_GG1_rev | MilliQ | total |
---|---|---|---|---|---|---|---|---|
1 | 0.5 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 15.5 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 57°C | 68°C | -- |
2min | 10s | 30s | 24s | 30cycles |
Transformation
Name | Plate |
---|---|
aptamer12-1R-DT | CP |
pSB1C3(EcoRI+SpeI)+pT181attenuator(EcoRI+Spal) | CP |
Pcon-pT181attenuator(EcoRI+XbaI)+RBS-GFP-DT(EcoRI+SpeI) | Amp |
Pcon-RBS-GFP-DT(EcoRI+XbaI)+Pcon-RBS-tetR-DT(EcoRI+SpeI) | Amp |
pSB1C3(EcoRI+SpeI)+Pcon-pT181attenuator-aptamer12-1R-DT(EcoRI+SpeI) | CP |
Electrophoresis
Column Refining
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
8/25 DT(2-1) | -- | -- | -- |
Restriction Enzyme Digestion
Concentrate PCR product by evaporator until volume become less than 3µL, add all sulution and pipetting.
9/25 DT(2-1) | 10*cut smart Buffer | BsaI-HF | MilliQ | total |
---|---|---|---|---|
3.0 µL | 2.0 µL | 0.3 µL | 14.7 µL | 20.0 µL |
Incubate 37°C 12hour
Liquid Culture
Sample | medium |
---|---|
Pcon-GFP-DT | LB(Amp) |
RBS-GFP-DT | LB(CP) |
Pcon-spinach-DT | LB(Amp) |
Pcon-tetRaptamer-DT | LB(Amp) |
Pcon-attenuator-DT | LB(Amp) |
spinach-DT | LB(CP) |
Pcon-antisense-spinach-DT | LB(Amp) |
Plating
Mix Liquid Culture 1mL and LB(+Amp), incubate 37°C 30min
Sample | Use plate | The number of plate |
---|---|---|
Pcon-GFP-DT | M9(+Amp) | 3 |
Pcon-GFP-DT | LB(+Amp) | 3 |
</div> incubate 37°C
Colony PCR
Sample | base pair |
---|---|
9/24 GGA-1(1~8) | 3177 |
9/24 GGA-2(1~8) | 3189 |
9/24 GGA-3(1~8) | 2989 |
9/24 GGA-4(1~8) | 2939 |
9/24 GGA-7(1) | 2489 |
GGA-16(1) | 2717 |
RBS-GFP-DT | -- |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 3min15s | 30cycles |
RNA Extraction
sumple 0.25mL
Add 1mLISOGEN-LS
Lysis or homogenization
Store for 5 min, at room temperature
Add 0.2mL Chloroform
Shake vigorously for 15sec.
Store for 2~3min.at room temperature
Centrifuge 12K*g for 15min. at 4°C
Extract aqueous phase
Add 0.5mL isopropanol
Store for 5~10min. at room temperature
Centrifuge 12K*g for 10min. at 4°C
Remove aqueous phase
Add at least 1mL 70% ethanol
Vortex
Centrifuge 7.5K*g for 5min. at 4°C
Remove aqueous phase
Dry briefly
Add ddH2O, TE(pH8.0) or 0.5% SDS
Dissolve
Total RNA solution
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Pcon-RBS-GFP-DT | 2783 | 1.95 | 1.48 |
Add 91.2µL, Store at freezer
Total 250µL</div>
cDNA Synthesis
volume | 7 µL |
---|---|
7*cDNA Wipcout Buffer | 1 µL |
Template RNA(9/25 Pcon-RBS-GFP-DT) | 3 µL |
RNase-frec water | 4 µL |
Incubate 42°C 2min, then on ice immediately
Add
5*Quantiscript Reverse Transcriptase | 0.5 µL |
---|---|
5*Quantiscript RT Buffer | 2 µL |
RT Primer Mix | 0.5µL |
Incubate 42°C 15min, then incubate 95°C 3min
Electrophoresis
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/13 Pcon-pT181-attenuator(SpeI&PstI) | 3.5µL | 9/25 RBS-GFP-DT(XbaI&PstI) | 13.5µL | 8.5 µL |
Sep 26
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | GGA1-1 | -- | -- |
2 | GGA1-2 | -- | -- |
3 | GGA1-3 | -- | -- |
4 | GGA1-4 | -- | -- |
5 | GGA1-5 | -- | -- |
6 | GGA1-6 | -- | -- |
7 | GGA1-7 | -- | -- |
8 | GGA1-8 | -- | -- |
9 | 1kbp ladder | -- | -- |
10 | GGA2-1 | -- | -- |
11 | GGA2-2 | -- | -- |
12 | GGA2-3 | -- | -- |
13 | GGA2-4 | -- | -- |
14 | GGA2-5 | -- | -- |
15 | GGA2-6 | -- | -- |
16 | GGA2-7 | -- | -- |
17 | GGA2-8 | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | GGA3-1 | -- | -- |
2 | GGA3-2 | -- | -- |
3 | GGA3-3 | -- | -- |
4 | 1kbp ladder | -- | -- |
5 | GGA3-4 | -- | -- |
6 | GGA3-5 | -- | -- |
7 | GGA3-6 | -- | -- |
8 | GGA3-7 | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | GGA3-8 | -- | -- |
2 | GGA4-1 | -- | -- |
3 | GGA4-2 | -- | -- |
4 | GGA4-3 | -- | -- |
5 | 1kbp ladder | -- | -- |
6 | GGA4-4 | -- | -- |
7 | GGA4-5 | -- | -- |
8 | GGA4-6 | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | GGA4-7 | -- | -- |
2 | GGA4-8 | -- | -- |
3 | 1kbp ladder | -- | -- |
4 | GGA7-1 | -- | -- |
5 | GGA16-1 | -- | -- |
6 | NC(RBS-GFP-DT) | -- | -- |
Ligasion(Golden Gate Assenbly)
state | Vector | Inserter1 | Inserter2 | Inserter3 | Inserter4 | Inserter5 | (NEB)T4 ligase | (NEB)10*T4 ligase | MilliQ | ||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
experiment | RBS-GFP-DT | 1.0 µL | Pcon-pT181 antisense(E-2A) | 0.6µL | DT(2-1) | 0.5µL | Pcon-pT181 attenuator(1-SA) | 2.1 µL | -- | -- | -- | -- | 0.5 µL | 0.5 µL | up to 5 µL |
experiment | pSB1C3(EcoRI&SpeI) | 1.8 µL | Pcon-pT181 antisense(E-2A) | 0.9 µL | DT(2-1) | 0.5 µL | Pcon-GFP-DT(1-SA) | 1.5 µL | -- | -- | -- | -- | 0.5 µL | 0.5 µL | up to 5 µL |
experiment | RBS-GFP-DT | 1.0 µL | Ptet(E-0) | 0.7µL | Pcon pT181 attenuator(0-1A) | 0.3µL | tet aptamer(1-3) | 0.3 µL | Pcon-tetR-DT(3-2A) | 1.1 µL | Ptet(2-5) | 0.3 µL | 0.5 µL | 0.5 µL | up to 5 µL |
experiment | RBS-GFP-DT | 1.0 µL | Ptet(E-0) | 0.7 µL | Pcon-pT181 attenuator-DT(0-1A) | 1.0 µL | Pcon-tetR-DT(1-2A) | 1.0 µL | Ptet(2-5) | 0.3µL | -- | -- | 0.5 µL | 0.5 µL | up to 5 µL |
experiment | RBS-GFP-DT | 1.0 µL | Pcon-pT181 attenuator-tetR-DT(E-1A) | 1.0 µL | Pcon antisense-spinach-DT(1-2A) | 0.7µL | Pcon-pT 181 attenuator(2-SA) | 2.1 µL | -- | -- | -- | -- | 0.5 µL | 0.5 µL | up to 5 µL |
experiment | RBS-GFP-DT | 1.0 µL | Pcon antisense(E-1A) | 0.5 µL | spinach-DT(1-2) | 1.0 µL | Pcon-GFP-DT(1-2) | 0.8 µL | -- | -- | -- | -- | 0.5 µL | 0.5 µL | up to 5 µL |
experiment | pSB1C3(EcoRI&SpeI) | 1.8 µL | Pcon-pT181 antisense(E-1A) | 0.8µL | spinach-DT(1-2) | 1.0µL | Pcon-GFP-DT(2-SA) | 0.8 µL | -- | -- | -- | -- | 0.5 µL | 0.5 µL | up to 5 µL |
experiment | pSB1C3(EcoRI&SpeI) | 1.8 µL | Pcon-tet aptamer-DT(E-1A) | 3.0 µL | Ptet-pT181 antisense(1-3) | 1.5 µL | spinach-DT(3-2) | 1.5 µL | Pcon-GFP-DT(2-5A) | 0.8 µL | -- | -- | 0.5 µL | 0.5 µL | up to 5 µL |
Liquid Culture
Sample | medium |
---|---|
Pcon-GFP-DT | Amp |
RBS-GFP-DT | CP |
Pcon-pT181 attenuator-DT | Amp |
Pcon-tet aptamer-DT | Amp |
Pcon-spinach-DT | Amp |
Pcon-pT181 antisense-spinach-DT | Amp |
spinach-DT | CP |
BSAI Digestion
DNA | MilliQ | BSAI-HF | 10*cut smart | total | |
---|---|---|---|---|---|
Pcon | 7 µL | 10.7 µL | 0.3 µL | 2 µL | 20 µL |
RBS-luxR-DT | 10 µL | 7 µL | 0.3 µL | 2 µL | 20 µL |
Colony PCR
Sample | base pair |
---|---|
GGA-1 (9~16) | 3177 |
GGA-2 (9~16) | 3189 |
GGA-3 (9~21) | 2989 |
GGA-4 (9~16) | 2939 |
GGA-6 (1) | 3359 |
GGA-16(2~4) | 2939 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 3min30s | 30cycles |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | GGA-1 (9) | -- | -- |
2 | GGA-1 (10) | -- | -- |
3 | GGA-1 (11) | -- | -- |
4 | GGA-1 (12) | -- | -- |
5 | GGA-1 (13) | -- | -- |
6 | GGA-1 (14) | -- | -- |
7 | GGA-1 (15) | -- | -- |
8 | GGA-1 (16) | -- | -- |
9 | 1kbp ladder | -- | -- |
10 | GGA-2 (9) | -- | -- |
11 | GGA-2 (10) | -- | -- |
12 | GGA-2 (11) | -- | -- |
13 | GGA-2 (12) | -- | -- |
14 | GGA-2 (13) | -- | -- |
15 | GGA-2 (14) | -- | -- |
16 | GGA-2 (15) | -- | -- |
17 | GGA-2 (16) | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | GGA-4 (9) | -- | -- |
2 | GGA-4 (10) | -- | -- |
3 | GGA-4 (11) | -- | -- |
4 | GGA-4 (12) | -- | -- |
5 | GGA-4 (13) | -- | -- |
6 | GGA-4 (14) | -- | -- |
7 | GGA-4 (15) | -- | -- |
8 | GGA-4 (16) | -- | -- |
9 | 1kbp ladder | -- | -- |
10 | GGA-6 (1) | -- | -- |
11 | GGA-16 (2) | -- | -- |
12 | GGA-16 (3) | -- | -- |
13 | GGA-16 (4) | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | GGA-3 (9) | -- | -- |
2 | GGA-3 (10) | -- | -- |
3 | GGA-3 (11) | -- | -- |
4 | GGA-3 (12) | -- | -- |
5 | 1kbp ladder | -- | -- |
6 | GGA-3 (13) | -- | -- |
7 | GGA-3 (15) | -- | -- |
8 | GGA-3 (14) | -- | -- |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | GGA-3 (17) | -- | -- |
2 | GGA-3 (18) | -- | -- |
3 | GGA-3 (19) | -- | -- |
4 | 1kbp ladder | -- | -- |
5 | GGA-3 (20) | -- | -- |
6 | GGA-3 (21) | -- | -- |
7 | GGA-3 (16) | -- | -- |
Electrophoresis
Liquid Culture
Sample | medium |
---|---|
Pcon-GFP-DT | -- |
RBS-GFP-DT | -- |
Pcon-tet aptamer-DT | -- |
Pcon-spinach-DT | -- |
Pcon-pT181 antisense-spinach-DT | -- |
spinach-DT | -- |
Colony PCR
Sample | base pair |
---|---|
9/25 Pcon-pH181 attenuator+RBS-GFP-DT-1 | -- |
9/25 Pcon-pH181 attenuator+RBS-GFP-DT-2 | -- |
9/25 Pcon-pH181 attenuator+RBS-GFP-DT-3 | -- |
9/25 Pcon-pH181 attenuator+RBS-GFP-DT-4 | -- |
9/24 Ptet-RBS-GFP-DT-1 | -- |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 1min40s | 30cycles |
Ligasion(Golden Gate Assenbly)
state | Vector | Inserter1 | Inserter2 | Inserter3 | Inserter4 | Inserter5 |
---|---|---|---|---|---|---|
experiment | GGA2 | Pcon-attenuator(E-1A) | Pcon-tetR-DT(1-2A) | Ptet(2-S) | RBS-GFP-DT(EcoRI&XbaI) | |
experiment | GGA3 | Pcon-tetap-DT(E-1A) | Pcon-tetR-DT(1-2A) | Ptet(2-S) | RBS-GFP-DT(EcoRI&XbaI) | |
experiment | GGA4 | Pcon-spi-DT(E-1A) | Pcon-tetR-DT(1-2A) | Ptet(2-S) | RBS-GFP-DT(EcoRI&XbaI) | |
experiment | GGA5 | Pcon-antisense(E-1A) | DT(1-3) | Pcon-tetR-DT(3-2A) | Ptet(2-S) | RBS-GFP-DT(EcoRI&XbaI) |
experiment | GGA6 | Pcon-attenuator(E-1A) | tetap-DT(1-3) | Pcon-tetR-DT(3-2A) | Ptet(2-S) | RBS-GFP-DT(EcoRI&XbaI) |
experiment | GGA7 | Pcon-tetR-DT(E-2A) | Ptet(2-S) | RBS-GFP-DT(EcoRI&XbaI) |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
37°C | 16°C | 50°C | 80°C | -- |
3min | 4min | 5min | 5min | 25cycles |
RNA Extraction
Sample |
---|
Pcon-Spinach-DT |
Pcon-tetRaptamer-DT |
Pcon-attenuator-DT |
Spinach-DT |
Pcon-antisense-Spinach-DT |
Liquid Culture
Sample |
---|
Pcon-attemuater-DT |
Pcon-aptamer-DT |
Pcon-spinach-DT |
Pcon-RBS-tetR-DT |
Pcon-antisense-spinach-DT(Master 1) |
Pcon-antisense |
Colony PCR
Sample | base pair |
---|---|
9/25 9/19pSB1C3&9/3PT181 attenuator(1~3) | 601bp |
9/25 aptamer12_1R-DT&9/24Pcon-pT181 attenuator(1~4) | 859bp |
Pcon-attenuator-aptamer-DT(1) | 859bp |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 65°C | -- |
5min | 30sec | 30sec | 54sec | 30 |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | 1kbp ladder | -- | -- |
2 | 9/25 9/23 1C3&9/3attenuator | -- | -- |
3 | 9/25 9/23 1C3&9/3attenuator | -- | -- |
4 | 9/25 9/23 1C3&9/3attenuator | -- | -- |
5 | 9/25aptamer-DT&9/24Pcon-attenuator | -- | -- |
6 | 9/25aptamer-DT&9/24Pcon-attenuator | -- | -- |
7 | 9/25aptamer-DT&9/24Pcon-attenuator | -- | -- |
8 | 9/24 Pcon attenuator-aptamer-DT(1) | -- | -- |
9 | 9/25aptamer-DT&9/24Pcon-attenuator | -- | -- |
Plating
Sample | Use plate |
---|---|
9/26 GGA2 | LB(CP) |
9/26 GGA3 | LB(CP) |
9/26 GGA4 | LB(CP) |
9/26 GGA5 | LB(CP) |
9/26 GGA6 | LB(CP) |
9/26 GGA7 | LB(CP) |
9/26 GGA11 | LB(CP) |
9/26 GGA312 | LB(CP) |
9/26 GGA13 | LB(CP) |
9/26 GGA14 | LB(CP) |
9/26 GGA15 | LB(CP) |
9/26 GGA20 | LB(CP) |
9/26 GGA23 | LB(CP) |
9/26 GGA24 | LB(CP) |
9/26 Ptet+RBS-GFP-DT | LB(CP) |
incubate 37°C
Restriction Enzyme Digestion
9/24 pSB1C3 | EcoRI | SpeI | buffer | MilliQ | total | |
---|---|---|---|---|---|---|
2cuts | 11µL | 1µL | 1µL | 3µL | 14µL | 30µL |
NC | 0.5µL | 0µL | 0µL | 1µL | 8.5µL | 10µL |
9/24 Pcon-pT181attenuator-aptamer12-1R-DT | EcoRI | SpeI | buffer | MilliQ | total | |
---|---|---|---|---|---|---|
2cuts | 8.7µL | 1µL | 1µL | 3µL | 16.3µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 1µL | 8.6µL | 10µL |
9/24 pT181attenuator | EcoRI | SpeI | buffer | MilliQ | total | |
---|---|---|---|---|---|---|
2cuts | 3.1µL | 1µL | 1µL | 3µL | 21.9µL | 30µL |
NC | 0.2µL | 0µL | 0µL | 1µL | 8.8µL | 10µL |
8/17 RBS-GFP-DT | EcoRI | BSA | buffer | MilliQ | total | |
---|---|---|---|---|---|---|
1cut | 16.4µL | 1µL | 3µL | 3µL | 6.6µL | 30µL |
NC | 0.4µL | 0µL | 1µL | 1µL | 7.6µL | 10µL |
9/17 pSB4K5 | EcoRI | PstI | BSA | buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 8.5µL | 1µL | 1µL | 3µL | 3µL | 13.5µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 1µL | 1µL | 7.6µL | 10µL |
9/14 pSB4K5 | EcoRI | PstI | BSA | buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 7.3µL | 1µL | 1µL | 3µL | 3µL | 14.7µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 1µL | 1µL | 7.6µL | 10µL |
9/22 Pcon-pT181attenuator-DT | EcoRI | SpeI | buffer | MilliQ | total | |
---|---|---|---|---|---|---|
2cuts | 5.4µL | 1µL | 1µL | 3µL | 19.6µL | 30µL |
NC | 0.3µL | 0µL | 0µL | 1µL | 8.7µL | 10µL |
8/7 RBS-GFP-DT 1 | XbaI | PstI | BSA | buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 8.1µL | 1µL | 1µL | 3µL | 3µL | 13.9µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 1µL | 1µL | 7.6µL | 10µL |
9/26 RBS-GFP-DT 1 | XbaI | BSA | buffer | MilliQ | total | |
---|---|---|---|---|---|---|
1cut | 8.1µL | 1µL | 3µL | 3µL | 14.9µL | 30µL |
9/16 Pλ-luxI | EcoRI | PstI | BSA | buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 14.7µL | 1µL | 1µL | 3µL | 3µL | 7.3µL | 30µL |
NC | 0.7µL | 0µL | 0µL | 1µL | 1µL | 7.3µL | 10µL |
9/21 Ptet | EcoRI | SpeI | buffer | MilliQ | total | |
---|---|---|---|---|---|---|
2cuts | 14.2µL | 1µL | 1µL | 3µL | 10.8µL | 30µL |
NC | 0.7µL | 0µL | 0µL | 1µL | 8.3µL | 10µL |
9/24 Pcon-pT181attenuator-aptamer12-1R-DT | XbaI | PstI | BSA | buffer | MilliQ | total | |
---|---|---|---|---|---|---|---|
2cuts | 8.7µL | 1µL | 1µL | 3µL | 3µL | 13.3µL | 30µL |
NC | 0.4µL | 0µL | 0µL | 1µL | 1µL | 7.6µL | 10µL |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | pSB1C3 | EcoRI | SpeI |
2 | pSB1C3 | -- | -- |
3 | Pcon-pT181attenuator-aptamer12-1R-DT | EcoRI | SpeI |
4 | Pcon-pT181attenuator-aptamer12-1R-DT | -- | -- |
5 | 1kb ladder | -- | -- |
6 | pT181attenuator | EcoRI | SpeI |
7 | pT181attenuator | -- | -- |
8 | RBS-GFP-DT | EcoRI | -- |
9 | RBS-GFP-DT | -- | -- |
Sep 27
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | -- |
2 | pSB1C3 | EcoRI+SpeI |
3 | ||
4 | ||
6 | Pcon-attenuator-aptmer-DT | EcoRI+SpeI |
7 | ||
8 | ||
10 | Pcon-attenuator-aptmer-DT | EcoRI+SpeI |
11 | ||
12 |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Pcon-attenuator-DT(EcoRI+SpeI) | 6.8 | 1.98 | 0.43 |
pT181-attenuator(EcoRI+SpeI) | 7.5 | 1.84 | 0.06 |
pSB1C3(EcoRI+SpeI) | 17.7 | 1.97 | 0.71 |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | -- |
3 | pSB4K5 | EcoRI+PstI |
4 | pSB4K5 | EcoRI+PstI |
5 | pSB4K5 | EcoRI+PstI |
7 | pSB6A1 | EcoRI+PstI |
8 | pSB6A1 | EcoRI+PstI |
9 | pSB6A1 | EcoRI+PstI |
Electrophoresis
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | pSB4K5 | EcoRI | PstI |
2 | pSB4K5 | - | - |
3 | 1kbp ladder | - | - |
4 | Pcon-attenuator | EcoRI | SpeI |
5 | Pcon-attenuator | - | - |
Lane | Sample | Enzyme1 | Enzyme2 |
---|---|---|---|
1 | RBS-GFP-DT | XbaI | PstI |
2 | RBS-GFP-DT | - | - |
3 | RBS-GFP-DT | EcoRI | XbaI |
4 | 1kbp ladder | - | - |
5 | Ptet | EcoRI | SpeI |
6 | Ptet | - | - |
Liquid Culture
Sample | medium |
---|---|
Pcon-GFP | Amp |
RBS-GFP-DT | CP |
Pcon-attenuator | Amp |
Pcon-attenuator-aptamer-DT | Amp |
Pcon-tetR-DT | Amp |
Ligation
state | Vector | Inserter | Ligation High ver.2 | ||
---|---|---|---|---|---|
experiment | 9/17 pSB1C3 (EcoRI+SpeI) 10.0ng/µL | 10µL | 9/26 pT181 attenuator(EcoRI+SpeI) 7.5ng/µL | 1.3µL | 3.5 µL |
experiment | 9/25 DT (EcoRI+XbaI) 42.8ng/µL | 2.3µL | 9/22 Pcon-pT181 antisense(EcoRI+SpeI) 46.7ng/µL | 1.5µL | 1.9 µL |
experiment | 9/27 pSB4K5(EcoRI+PstI) 12.9ng/µL | 7.8µL | 9/10 Pcon-attenuator(EcoRI+SpeI) 13.8ng/µL | 8.0µL | 3.5 µL |
experiment | 9/27 pSB4K5(EcoRI+PstI) 12.9ng/µL | 7.8µL | 9/25 RBS-GFP-DT(XbaI+PstI) 13.9ng/µL | 12µL | 3.5 µL |
experiment | 9/8 pSB4K5 (EcoRI+SpeI) 17.6ng/µL | 5.7 µL | 8/21 Pcon-GFP-DT(EcoRI+SpeI) 11ng/µL | 12.6µL | 3.5 µL |
Liquid Culture
Sample | medium |
---|---|
Pcon-spinach-DT | plusgrow Amp |
Pcon-tetRaptamer-DT | plusgrow Amp |
Pcon-antisense-spinach-DT | plusgrow Amp |
spinach-DT | plusgrow CP |
RNA Extraction
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
9/26 Pcon-GFP-DT | 423.0 | 1.83 | 1.46 |
9/26 Pcon-GFP-DT K | 298.7 | 1.82 | 1.50 |
Electrophoresis
Miniprep
DNA |
---|
Pcon-aptamer-DT |
Pcon-spinach-DT |
Pcon-antisense |
Pcon-tetR-DT |
Pcon-attenuator-DT |
Pcon-antisense-spinach-DT |
Transformation
Name1 | Name2 | Sample1(µL) | Sample2(µL) | Competent Cells(µL) | Total(µL) |
---|---|---|---|---|---|
Pcon-attenuator+RBS-GFP-DT(4K5) | Pcon-attenuator-DT(1A2) | 2 | 1 | 30 | 33 |
Pcon-attenuator+RBS-GFP-DT(4K5) | Pcon-antisense-spinach-DT(1A2) | 2 | 1 | 30 | 33 |
Pcon-attenuator+RBS-GFP-DT(4K5) | Pcon-tetR aptamer-DT(1A2) | 2 | 1 | 30 | 33 |
Pcon-RBS-GFP-DT(4K5) | Pcon-attenuator-DT(1A2) | 2 | 1 | 30 | 33 |
Pcon-RBS-GFP-DT(4K5) | Pcon-antisense-spinach-DT(1A2) | 2 | 1 | 30 | 33 |
Pcon-RBS-GFP-DT(4K5) | Pcon-tetR aptamer-DT(1A2) | 2 | 1 | 30 | 33 |
Pcon-attenuator+RBS-GFP-DT(4K5) | -- | 2 | -- | 20 | 22 |
Pcon-RBS-GFP-DT(4K5) | -- | 2 | -- | 20 | 22 |
attenuator(1C3) | -- | 2 | -- | 20 | 22 |
Miniprep
DNA | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Pcon-RBS-GFP-DT | 137.6 | 1.95 | 1.78 |
RBS-GFP-DT | 77.0 | 2.06 | 1.96 |
Pcon-PT181 attenuator | 231.0 | 1.89 | 1.89 |
Pcon-antisense-Spinach-DT(2) | 130.0 | 1.56 | 1.62 |
Pcon-aptamer-DT | 218.8 | 1.92 | 1.72 |
Pcon-attenuator-DT | 180.7 | 1.95 | 1.78 |
Pcon-Spinach-DT | 177.6 | 1.96 | 1.06 |
Pcon-antisense-Spinach-DT(1) | 181.1 | 1.96 | 1.92 |
Pcon-antisense | 152.9 | 2.02 | 1.96 |
Pcon-RBS+ezR-DT | 164.1 | 1.93 | 1.91 |
Restriction Enzyme Digestion
9/27 RBS-GFP-DT | XbaI | PstI | Buffer | BSA | MilliQ | total | |
---|---|---|---|---|---|---|---|
2 cuts | 12µL | 1µL | 1µL | 3µL | 3µL | 20µL | 40µL |
NC | 1.3µL | 0µL | 0µL | 1µL | 1µL | 6.7µL | 10µL |
9/27 Pcon-tetR-DT | EcoRI | PstI | Buffer | MilliQ | total | |
---|---|---|---|---|---|---|
2 cuts | 12.2µL | 1µL | 1µL | 3µL | 12.8µL | 30µL |
NC | 0.6µL | 0µL | 0µL | 1µL | 8.4µL | 10µL |
RNA Extraction
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
9/27 Pcon-RBS-GFP-DT | 686.6 | 1.99 | 1.34 |
9/27 Pcon-RBS-GFP-DT (+High salt) | 127.6 | 1.76 | 0.27 |
DNA sythesis
genome DNA | DNA volume | genome DNA wipeout buffer | RNase freewater | RT | RT buffer | Primer Mix | total |
---|---|---|---|---|---|---|---|
9/27 Pcon-RBS-GFP-DT | 0.8µL | 1µL | 5.2µL | 0.5µL | 2µL | 0.5µL | 10µL |
9/27 pcon-RBS-GFP-DT(+high salt) | 2.5µL | 1µL | 3.5µL | 0.5µL | 2µL | 0.5µL | 10µL |
9/27 Pcon-RBS-GFP-DT(revised concentration) | 0.5µL | 1µL | 5.5µL | 0.5µL | 2µL | 0.5µL | 10µL |
Electrophoresis
Liquid Culture
Sample | medium |
---|---|
Pcon spinach DT | plusgrow 2µL(Amp) |
Pcon aptamer DT | plusgrow 2µL(Amp) |
Pcon antisense Spinach DT | plusgrow 2µL(Amp) |
Spinach DT | plusgrow 4µL(CP) |
RT PCR
genome DNA | KOD plus | 10x buffer for KOD-plus-ver.2 | 2nM dNTPs | 25mM MgSO4 | F primer | R primer | MilliQ | total |
---|---|---|---|---|---|---|---|---|
0.5 | 1 | 2.5 | 2.5 | 1.5 | 0.75 | 0.75 | 15.5 | 25 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 98°C | 49.8°C | 68°C | -- |
2min | 10sec | 30sec | 10sec | 30 |
Electrophoresis
Lane | Sample |
---|---|
1 | Pcon-GFP-DT(GFP) |
2 | Pcon-GFP-DT(internal) |
3 | Pcon-GFP-DT(HS)(GFP) |
4 | Pcon-GFP-DT(internal) |
Digesting cut check
Lane | Sample |
---|---|
1 | RBS-GFP-DT(XbaI&PstI) |
2 | RBS-GFP-DT NC(XbaI&PstI) |
3 | 1kbp ladder |
4 | Pcon-RBS-tetR-DT(EcoRI&SpeI) |
5 | Pcon-RBS-tetR-DT NC(EcoRI&SpeI) |
Gel Extraction
Lane | DNA | Enzyme |
---|---|---|
1 | 1kbp ladder | -- |
3 | RBS-GFP-DT | Xbal+PstI |
4 | RBS-GFP-DT | Xbal+PstI |
5 | RBS-GFP-DT | Xbal+PstI |
7 | 1kbp ladder | -- |
9 | Pcon-tetR-DT | EcoRI+SpeI |
10 | Pcon-tetR-DT | EcoRI+SpeI |
11 | Pcon-tetR-DT | EcoRI+SpeI |
RNA Extraction
0 | 5min | 15min | 20min | 23min | 28min | 33min | 36min | |
---|---|---|---|---|---|---|---|---|
aptamer generator | 0.348 | 0.408 | 0.550 | 0.865 | ||||
Pcon-spinach-DT | 0.250 | 0.240 | 0.305 | 0.426 | 0.471 | 0.554 | 0.668 | 0 |
GFP generator | 0.389 | 0.420 | 0.516 | 0.884 | ||||
antisense-spinach | 0.371 | 0.438 | 0.537 | 0.733 | ||||
Spinach-DT | 0.084 | 0.110 | 0.134 | 0.433 | 0.269 | 0.326 | 0.409 | 0.742 |
Name | concentration[µg/mL] | 260/280 | 260/230 |
---|---|---|---|
Spinach-DT | 83.9 | 1.63 | 0.17 |
Pcon-tetRaptamer-DT | 425.1 | 2.10 | 0.64 |
Pcon-RBS-GFP-DT | 262.4 | 2.01 | 0.84 |
Pcon-antisense-Spinach-DT | 489.1 | 2.05 | 0.68 |
Pcon-Spinach-DT | 266.6 | 2.01 | 0.66 |
cDNA Synthesis
9/27 Spinach-DT | 9/23 Pcon-tetRaptamer-DT | 9/23 Pcon-RBS-GFP-DT | 9/23 Pcon-antisense-spinach-DT | 9/23 Pcon-Spinach-DT | |
---|---|---|---|---|---|
RNA | 1 | 1 | 1 | 1 | 1 |
gDNA wipeout | 6 | 1.2 | 1.9 | 1.0 | 1.9 |
RNase-free water | 0 | 4.8 | 4.1 | 5.0 | 4.1 |
RT | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 |
RT Buffer | 2 | 2 | 2 | 2 | 2 |
Primer mix | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 |
total | 10µL | 10µL | 10µL | 10µL | 10µL |
Sep 28
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | Spinach-DT+GAPDH+A1 |
3 | Spinach-DT+Spinach+C1 |
4 | Spinach-DT+gfp+E1 |
5 | Spinach-DT+aptamer+G1 |
6 | Pcon-tetR aptamer-DT+GADPH+A3 |
7 | Pcon-tetR aptamer-DT+Spinach+C3 |
8 | Pcon-tetR aptamer-DT+gfp+E3 |
9 | Pcon-tetR aptamer-DT+aptamer+G3 |
10 | Pcon-RBS-GFP-DT+GADPH+A5 |
11 | Pcon-RBS-GFP-DT+Spinach+C5 |
12 | Pcon-RBS-GFP-DT+gfp+E5 |
13 | Pcon-RBS-GFP-DT+aptamer+G5 |
14 | 100bp ladder |
Lane | Sample |
---|---|
1 | Pcon-antisense-Spinach-DT+GAPDH+A7 |
2 | Pcon-antisense-Spinach-DT+Spinach+C7 |
3 | Pcon-antisense-Spinach-DT+gfp+E7 |
4 | Pcon-antisense-Spinach-DT+aptamer+G7 |
5 | 100bp ladder |
6 | Pcon-Spinach-DT+GAPDH+A9 |
7 | Pcon-Spinach-DT+Spinach+C9 |
8 | Pcon-Spinach-DT+gfp+E9 |
9 | Pcon-Spinach-DT+aptamer+G9 |
Colony PCR
Sample | base pair |
---|---|
9/27 pT181 attenuatorC(C3)1 | 330 |
9/27 pT181 attenuatorC(C3)2 | 330 |
9/27 Pcon antisense-DT1 | 372 |
9/27 Pcon antisense-DT2 | 372 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 24s |
Sample | base pair |
---|---|
9/27 Pcon-RBS-GFP-DT (4&5) | 1158 |
9/27 Pcon-RBS-GFP-DT (4&5) | 1158 |
9/27 Pcon-RBS-GFP-DT (4&5) | 1158 |
9/27 Pcon-RBS-GFP-DT (4&5) | 1158 |
PreDenature | Denature | Annealing | Extension | cycle |
---|---|---|---|---|
94°C | 94°C | 55°C | 68°C | -- |
5min | 30s | 30s | 1min24s |
Electrophoresis
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | Pcon-tetR aptamer-DT+GADPH+A3 |
3 | Pcon-antisense-Spinach-DT+GADPH+A7 |
4 | Spinach-DT+GADPH+A1 |
5 | Pcon-RBS-GFP-DT+GADPH+A5 |
6 | Pcon-Spinach-DT+GADPH+A9 |
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | Pcon-tetR aptamer-DT+gfp+E3 |
3 | Pcon-antisense-Spinach-DT+gfp+E7 |
4 | Spinach-DT+gfp+E1 |
5 | Pcon-RBS-GFP-DT+gfp+E5 |
6 | Pcon-Spinach-DT+gfp+E9 |
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | Pcon-tetR aptamer-DT+Spinach+C3 |
3 | Pcon-antisense-Spinach-DT+gfp+C7 |
4 | Spinach-DT+Spinach+C1 |
5 | Pcon-RBS-GFP-DT+Spinach+C5 |
6 | Pcon-Spinach-DT+Spinach+C9 |
Lane | Sample |
---|---|
1 | 100bp ladder |
2 | Pcon-tetR aptamer-DT+aptamer+G3 |
3 | Pcon-antisense-Spinach-DT+aptamer+G7 |
4 | Spinach-DT+aptamer+G1 |
5 | Pcon-RBS-GFP-DT+aptamer+G5 |
6 | Pcon-Spinach-DT+aptamer+G9 |