Team:Paris/August 20

From 2008.igem.org

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=='''Digestion of MP162'''==
 
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==='''Measurement of the concentration of MPs 162'''===
 
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{|border="1" style="text-align: center"
 
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|'''Miniprep Name'''
 
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|'''Concentration (µg/mL)'''
 
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|'''Ratio 260/280'''
 
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|-
 
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|MP162.1
 
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|151
 
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|1.71
 
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|-
 
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|MP162.2
 
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|172
 
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|1.73
 
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|-
 
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|MP162.3
 
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|149
 
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|1.73
 
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|}
 
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==='''Digestion'''===
 
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[[Team:Paris/Notebook/Protocols#Digestion |Protocol]]
 
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{| Border="2"
 
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|align="center"|'''Digestion name'''
 
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|align="center"|'''Template DNA'''
 
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|align="center"|''' Enzymes '''
 
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|align="center"|'''Volume of DNA'''
 
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|-
 
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|align="center"|D165
 
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|align="center"|MP162.2
 
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|align="center"|XbaI - PstI
 
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|align="center"|5.81 µL
 
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|}
 
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==='''Gel Extraction'''===
 
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[[Image:KR000185b.jpg| thumb|Gel Extraction of D165]]
 
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[[Team:Paris/Notebook/Protocols#Migration after extraction |Protocol]]
 
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{|border="1" style="text-align: center"
 
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|'''Well'''
 
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|'''Sample'''
 
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|'''Expected size'''
 
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|'''Measured size'''
 
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|-
 
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|1
 
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|1kb ladder
 
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|
 
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|
 
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|-
 
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|2
 
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|MP162.2
 
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|2855
 
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|style="background: #cbff7B"| 3000
 
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|-
 
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|3
 
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|no sample
 
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|
 
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|
 
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|-
 
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|4
 
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|D165.2
 
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|2057 / 798
 
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|style="background: #cbff7B"| 2000 / 800
 
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|-
 
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|5
 
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|no sample
 
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|
 
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|
 
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|-
 
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|6
 
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|100pb ladder
 
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|
 
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=='''Ligation'''==
=='''Ligation'''==

Revision as of 18:09, 20 August 2008

← Yesterday

↓ Calendar ↑

Tomorrow →

Contents

Screening of the cloning of E0240 and FlhDC+promotor

Spreading the clones in order to obtain single colonies

Strain Resistance Ligation DNA cloned vector expected size of the fragment amplified by VF & VR mesured size
S159.1 kanamycine L139.1 E0240 (GFP tripart) pSB3K3 1192 bp 1,5 kb
1,1 kb
0,6 kb
S161.1 ampicilline L142.7 FlhDC+promotor pSB1A2 1403 bp 1,4
0,4 kb
0,3 kb

The plates obtained from the speading of yesterday can't be used because there are not single colonies.
We have to try again, but with a stronger dilution of the bacteria or with a smaller volume of spreading.

  • Resuspension of some bacteria from the glycerol stock into 1 mL of LB+antibiotic
  • Dilution 10 and dilution 100
  • Spreading of 100 µL of each dilution on a LB plate containing the right antibiotic
  • Overnight incubation (37°C)


Miniprep and stock glycerol

Stock Glycerol of New Biobrick

Stock number Biobricks Description
S163.1 B0032 RBS
S163.2
S164.1 E0422 Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.pngRBS+ ECFP+ LVA+ term
S164.2
S165.1 E0430 Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.pngRBS+ YFP+ LVA- term
S165.2
S166.1 E0432 Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.pngRBS+ YFP LVA+ term
S166.2
S167.1 E0420 Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.pngRBS+ ECFP LVA- term
S167.2
S168.1 I732078 Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.pngRBS+ mRFP LVA+ term
S168.2

Miniprep of New Biobricks

Miniprep Biobricks Description
MP163.1 B0032 RBS
MP163.2
MP164.1 E0422 Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.pngRBS+ ECFP+ LVA+ term
MP164.2
MP165.1 E0430 Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.pngRBS+ YFP+ LVA- term
MP165.2
MP166.1 E0432 Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.pngRBS+ YFP LVA+ term
MP166.2
MP167.1 E0420 Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.pngRBS+ ECFP LVA- term
MP167.2
MP168.1 I732078 Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.pngRBS+ mRFP LVA+ term
MP168.2


Ligation

Protocol

Ligation Name Vector Name Volume Vector (µL) Insert Volume Insert (µL)
L153 D123.1 1.54 D165 1.69
L154 D103.2 1.14 D165 1.68
Control L153 D123.1 1.54 - -
Control L154 D103.2 1.14 - -

Culture of stable strains with biobrocks 2008

Protocol

Biobrick Name Part Description
[http://partsregistry.org/Part:BBa_B0032 B0032] in [http://partsregistry.org/Part:pSB1A2 pSB1A2] rbs (efficiency=0.3) Icon rbs.png
[http://partsregistry.org/Part:BBa_E0422 E0422] in [http://partsregistry.org/Part:pSB1A2 pSB1A2] ECFP (LVA+) Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.png
[http://partsregistry.org/Part:BBa_E0420 E0420] in [http://partsregistry.org/Part:pSB1A2 pSB1A2] ECFP (LVA-) Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.png
[http://partsregistry.org/Part:BBa_E0430 E0430] in [http://partsregistry.org/Part:pSB1A2 pSB1A2] EYFP (LVA-) Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.png
[http://partsregistry.org/Part:BBa_E0432 E0432] in [http://partsregistry.org/Part:pSB1A2 pSB1A2] EYFP (LVA+) Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.png
[http://partsregistry.org/Part:BBa_I732078 I732078] in [http://partsregistry.org/Part:pSB1A3 pSB1A3] mRFP1 (LVA+) Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.png
[http://partsregistry.org/Part:BBa_I13507 I13507] in [http://partsregistry.org/Part:pSB1A2 pSB1A2] mRFP1 (LVA-) Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.png


Construction of pFlgA - YFP tripart

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

Digestion

Measurement of concentration of minipreps

standard protocol

Miniprep Biobrick C° (µg/mL) ratio 260/280
MP164.1 E0422 95 1.69
MP164.2 E422 90 1.76
MP165.1 E0430 131 1.74
MP165.2 E0430 nd nd
MP166.1 E0432 112 1.65
MP166.2 E0432 79 1.6
MP167.1 E0420 199 1.72
MP167.2 E0420 194 1.73
MP168.1 I732078 111 1.65
MP168.2 I732078 104 1.67
MP122.1 E0840 56 1.58
MP122.2 E0840 98 1.63


Digestion

Protocol Digestion

Name Template DNA Description Vol MP (µl) Vol H2O (µl) Enzymes
D166 MP165.1 - FV 7.63 17 EcoRI and XbaI
D167 MP166.1 - BV 8.9 15.8 EcoRI and XbaI
D131 MP122.2 - BV 10.2 14.5 XbaI and PstI


Gel Extraction

File:KR000.jpg
Gel Extraction of D166-D167-D131

Protocol


Well Sample Expected size Measured size
1 1kb ladder
2 MP165.1 2 957 pb
3 MP166.1 2 996 pb
4 MP122.2 2 957 pb
5 no sample
6 D166 885 pb
7 no sample
8 D167 914 pb
9 no sample
10 D131 900 pb
11 no sample
12 100pb ladder


Results of the transformation we did yesterday

Number of colonies

Ligation name Description Antibio Number Colonies observed Fluorescence Comments
Ligations
L153 D123(BV) - D165(BI)
J23100 - rbs-LasR-Double terminator 		Amp 768 No OK
L154 D103(BV) - D165(FV)
J23101 - rbs-LasR - Double terminator 		Amp 236 No OK
Controls
C1 D123(BV) Amp 23 No OK
C2 D103(FV) Amp 144 No OK
Positive Control pUC19 Amp 2264 (efficiency 4,5.10^8) No OK


PCR Screening

==> Protocol [[Image:]]

Well Sample Expected size Measured size
1 153.1 1194 1200
2 153.2
3 153.3
4 L153.4
5 L153.5
6 L153.6
7 L153.7
8 L153.8
9 1kb ladder
10 L154.1 1194 1200
11 L154.2
12 L154.3
13 L154.4
14 L154.5
15 L154.6
16 L154.7
17 L154.8
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