Team:Paris/August 22

From 2008.igem.org

(Difference between revisions)
(→Transformation of the ligations we did yesterday)
(→Transformation of the ligations we did yesterday)
 
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|'''measured size'''
|'''measured size'''
|
|
-
|'''1 kb'''<br>3 kb
+
|style="background: #ff6d73" |'''1 kb'''<br>3 kb
|
|
-
|0,3 kb<br>1,8 kb
+
|style="background: #ff6d73" |0,3 kb<br>1,8 kb
-
|0,3 kb<br>1,8 kb
+
|style="background: #cbff7B"| 0,3 kb<br>1,8 kb
-
|0,9 kb<br>2 kb
+
|style="background: #ff6d73" |0,9 kb<br>2 kb
-
|2 kb
+
|style="background: #ff6d73" |2 kb
-
|2 kb
+
|style="background: #ff6d73" |2 kb
|
|
|}
|}
-
<br>'''Results''': The clones tested didn't have the insert.
+
 
 +
'''Results''': The clones tested didn't have the insert.
 +
 
='''Construction of pFlgA - GFP Generator'''=
='''Construction of pFlgA - GFP Generator'''=
-
Aim : Construction of ''' "pFlgA-RBS-GFP-dbl ter" (pFlgA-E0430/E0432)''' [[Image:Part_icon_regulatory.png]][[Image:Part_icon_rbs.png]][[Image:icon_reporter.png]][[Image:Part_icon_terminator.png]][[Image:Part_icon_terminator.png]]
+
Aim : Construction of ''' "pFlgA-RBS-GFP-dbl ter" (pFlgA-E0240)''' [[Image:Part_icon_regulatory.png]][[Image:Part_icon_rbs.png]][[Image:icon_reporter.png]][[Image:Part_icon_terminator.png]][[Image:Part_icon_terminator.png]]
==Digestion==
==Digestion==
Line 111: Line 113:
==='''Gel Extraction'''===
==='''Gel Extraction'''===
[[Team:Paris/Notebook/Protocols#Migration after extraction |Protocol]]
[[Team:Paris/Notebook/Protocols#Migration after extraction |Protocol]]
-
[[Image:KR00019b.jpg |thumb |Gel Extraction of D168]]
+
[[Image:KR000222b.JPG |thumb |Gel Extraction of D168]]
{|border="1" style="text-align: center"
{|border="1" style="text-align: center"
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|
|
|
|
-
|
+
|2 940
 +
| colspan="2"|
|-
|-
|'''Measured size (pb)'''
|'''Measured size (pb)'''
|
|
-
|style="background: #cbff7B"|  
+
|style="background: #cbff7B"|5.000
-
|
+
-
|style="background: #cbff7B"|
+
|
|
 +
|style="background: #cbff7B"|3 000
 +
|colspan="2"|
|}
|}
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|-
|-
|D168
|D168
-
|
+
|24
-
|
+
|2.15
|}
|}
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|L164
|L164
|D168
|D168
-
|
+
|1.67
|D132
|D132
-
|
+
|2.04
|-
|-
|Control L164
|Control L164
|D168
|D168
-
|
+
|1.67
| -
| -
| -
| -
|}
|}
 +
='''Construction for FIFO'''=
='''Construction for FIFO'''=
Line 193: Line 197:
|-
|-
|L160
|L160
-
|D166 (FV) + D132 (FI)
+
|D166 (FV) + D132 (FI)<br>pFlgA - YFP  tripart (LVA-)
|Amp
|Amp
|-
|-
-
|Control L160
+
|TL160
-
|D166
+
|D166<br> YFP  tripart (LVA-)
|Amp
|Amp
|-
|-
|L161
|L161
-
|D167 (FV) + D1132 (FI)
+
|D167 (FV) + D132 (FI)<br>pFlgA - YFP  tripart (LVA+)
|Amp
|Amp
|-
|-
-
|Control L161
+
|TL161
-
|D167
+
|D167<br>YFP  tripart (LVA+)
|Amp
|Amp
|}
|}
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|-
|-
|L159
|L159
-
|D125 (FV)+D109(FI)
+
|D125 (FV) + D109 (FI)
|Kan
|Kan
|-
|-
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|-
|-
|L162
|L162
-
|D107(BV) + D163 (BI)
+
|D107 (BV) + D163 (BI)
|Amp
|Amp
|-
|-
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|-
|-
|L163
|L163
-
|D110(BV)+D163(BI)
+
|D110 (BV) + D163 (BI)
|Amp
|Amp
|-
|-
|Control L163
|Control L163
|D110
|D110
 +
|Amp
 +
|}
 +
 +
 +
 +
='''Promoter characterization plasmids'''=
 +
 +
==Transformation of ligations from August 20th==
 +
[[Team:Paris/Notebook/Protocols#Transformation |Protocol]]
 +
 +
'''Top 10 cells were used'''
 +
 +
{|border="1" style="text-align: center"
 +
|'''Ligation name'''
 +
|'''Vector digestion'''
 +
|'''Vector description'''
 +
|'''C° Vector (µg/mL)'''
 +
|'''V. Vector (µl)'''
 +
|'''Insert digestion'''
 +
|'''Insert description'''
 +
|'''C° Insert (µg/mL)'''
 +
|'''V. Insert (µl)'''
 +
|'''Product description'''
 +
|'''Antibiotic'''
 +
|-
 +
|L155
 +
|D164
 +
|J23101 promoter
 +
|3
 +
|16
 +
|D163
 +
|gfp generator
 +
|14
 +
|8
 +
|J23101 promoter-gfp generator
 +
|Amp
 +
|-
 +
|L156
 +
|D161
 +
|pTet promoter
 +
|39
 +
|1.25
 +
|D163
 +
|gfp generator
 +
|14
 +
|5
 +
|pTet promoter-gfp generator
 +
|Kana
 +
|-
 +
|Control L156
 +
|D161
 +
|
 +
|
 +
|1.25
 +
|none
 +
|
 +
|
 +
|
 +
|Vector autoligation control
 +
|Kana
 +
|-
 +
|L157
 +
|D125.2
 +
|B0015
 +
|15
 +
|3
 +
|D162
 +
|tetR
 +
|11
 +
|4
 +
|tetR-B0015
 +
|Kana
 +
|-
 +
|Control L157
 +
|D125.2
 +
|
 +
|
 +
|3
 +
|none
 +
|
 +
|
 +
|
 +
|Vector autoligation control
 +
|Kana
 +
|-
 +
|L166
 +
|D185
 +
|RBS B0032
 +
|21
 +
|2
 +
|D182
 +
|tetR
 +
|10
 +
|6.5
 +
|RBS B0032 - tetR
 +
|Amp
 +
|-
 +
|Control L166
 +
|D185
 +
|
 +
|
 +
|2
 +
|none
 +
|
 +
|
 +
|
 +
|Vector autoligation control
 +
|Amp
 +
|-
 +
|L167
 +
|D181
 +
|pTet
 +
|1
 +
|14
 +
|D184
 +
|gfp generator
 +
|14
 +
|3
 +
|gfp generator - pTet
 +
|Amp
 +
|-
 +
|Control L167
 +
|D181
 +
|pTet
 +
|
 +
|14
 +
|none
 +
|
 +
|
 +
|
 +
|Vector autoligation control
|Amp
|Amp
|}
|}

Latest revision as of 00:54, 21 September 2008

← Yesterday

↓ Calendar ↑

Tomorrow →

Contents

Analysis of the transformant of FlhDC+promotor

  • Analysis of the plasmids MP160.1 and MP160.2 (FlhDC+promotor in pSB1A2)
  • Control: MP143 (GFP generator in pSB1A2)

PCR

PCR screening programm
elongation time: 1 min 30
total volume reaction (25 µL)

  • 12,5 µL Quick load PCR Mix 2X
  • 0,5 µL O18
  • 0,5 µL O19
  • 1 µL DNA
  • 10,5 µL water

Digestion

total volume reaction (30 µL)

  • 2 µL DNA
  • 3 µL buffer 2 10X
  • 0,3 µL BSA 100X
  • 1 µL XbaI
  • 1 µL SpeI
  • 22,7 µL water

Incubation 2h55 at 37°C and then 20 min at 65°C.

Electrophoresis

KR000219.jpg
  • 1% agarose gel
  • for PCR products: 10 µL loaded
  • for digestion products (30 µL): adding of 7 µL of loading blue and then 20 µL loaded on gel
well n° 1 2 3 4 5 6 7 8 9
method PCR digestion
sample 1 kb DNA ladder positive control MP143 negative control MP160.1 MP160.2 MP143 MP160.1 MP160.2 100 bp DNA ladder
expected size 1114 bp 1403 bp 876 bp (E0240)
2079 (pSB1A2) 		1165 bp (FlhDC+promotor)
2079 bp (pSB1A2)
measured size 1 kb
3 kb 		0,3 kb
1,8 kb 		0,3 kb
1,8 kb 		0,9 kb
2 kb 		2 kb 2 kb 


Results: The clones tested didn't have the insert.


Construction of pFlgA - GFP Generator

Aim : Construction of "pFlgA-RBS-GFP-dbl ter" (pFlgA-E0240) Part icon regulatory.pngPart icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.png

Digestion

Digestion

Protocol Digestion

Name Template DNA Description Vol MP (µl) Vol H2O (µl) Enzymes
D168 MP143.1 RBS - GFP - term (FV) 7.25 17.45 EcoRI and XbaI

Gel Extraction

Protocol

Gel Extraction of D168
Well 1 2 3 4 5 6
Sample 100 pb ladder MP143.1 no sample D168 no sample
Expected size (pb) 2 940
Measured size (pb) 5.000 3 000

Measurement of the concentration of D168 purified

Protocol (it's same that for Miniprep)

Digestion Name Concentration (µg/mL) Ratio 260/280
D168 24 2.15

Ligation

Protocol

Ligation Name Vector Name Volume Vector (µL) Insert Volume Insert (µL)
L164 D168 1.67 D132 2.04
Control L164 D168 1.67 - -


Construction for FIFO

Aim : Construction of pFlgA - YFP tripart (+/- LVA) "pFlgA-RBS-YFP-dbl ter" (pFlgA-E0430/E0432) Part icon regulatory.pngPart icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.png

Transformation of the ligations we did yesterday

Protocol

Ligation Name Description Antibio
L160 D166 (FV) + D132 (FI)
pFlgA - YFP tripart (LVA-) 		Amp
TL160 D166
YFP tripart (LVA-) 		Amp
L161 D167 (FV) + D132 (FI)
pFlgA - YFP tripart (LVA+) 		Amp
TL161 D167
YFP tripart (LVA+) 		Amp

Construction for synchronization

Transformation of the ligations we did yesterday

Protocol

Ligation Name Description Antibio
L158 D110 (BV) + D131 (BI) Amp
Control L158 D110 Amp
L159 D125 (FV) + D109 (FI) Kan
Control L159 D125 Kan

Ligation

Protocol

Ligation Name Description Vector Name Volume vector (µL) Insert Name Volume insert (µL)
L162 rbs-lasI + gfp generator
Part icon rbs.pngIcon coding.pngPart icon rbs.pngPart icon reporter.pngPart icon terminator.pngPart icon terminator.png 		D107 (BV) 10 D163 (BI) 3.46
Control L162 autoligation control D107 (BV) 10 - -
L163 rbs-TetR + gfp generator
Part icon rbs.pngIcon coding.pngPart icon rbs.pngPart icon reporter.pngPart icon terminator.pngPart icon terminator.png 		D110 (BV) 2.5 D163 (BI) 3.44
Control L163 autoligation control D110 (BV) 2.5 - -

Transformation

Protocol

Ligation Name Description Antibio
L162 D107 (BV) + D163 (BI) Amp
Control L162 D107 Amp
L163 D110 (BV) + D163 (BI) Amp
Control L163 D110 Amp


Promoter characterization plasmids

Transformation of ligations from August 20th

Protocol

Top 10 cells were used

Ligation name Vector digestion Vector description C° Vector (µg/mL) V. Vector (µl) Insert digestion Insert description C° Insert (µg/mL) V. Insert (µl) Product description Antibiotic
L155 D164 J23101 promoter 3 16 D163 gfp generator 14 8 J23101 promoter-gfp generator Amp
L156 D161 pTet promoter 39 1.25 D163 gfp generator 14 5 pTet promoter-gfp generator Kana
Control L156 D161 1.25 none Vector autoligation control Kana
L157 D125.2 B0015 15 3 D162 tetR 11 4 tetR-B0015 Kana
Control L157 D125.2 3 none Vector autoligation control Kana
L166 D185 RBS B0032 21 2 D182 tetR 10 6.5 RBS B0032 - tetR Amp
Control L166 D185 2 none Vector autoligation control Amp
L167 D181 pTet 1 14 D184 gfp generator 14 3 gfp generator - pTet Amp
Control L167 D181 pTet 14 none Vector autoligation control Amp
Retrieved from "http://2008.igem.org/Team:Paris/August_22"