Team:Paris/August 20

From 2008.igem.org

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(→Results of the transformation we did [Team:Paris/August 19 yesterday])
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*Spreading of 100 µL of each dilution on a LB plate containing the right antibiotic
*Spreading of 100 µL of each dilution on a LB plate containing the right antibiotic
*Overnight incubation (37°C)
*Overnight incubation (37°C)
 +
 +
 +
='''Miniprep and stock glycerol'''=
 +
 +
==Stock Glycerol of New Biobrick==
 +
*[[Team:Paris/Notebook/Protocols#Glycerol stocks| Protocol stocks]]
 +
 +
{|border="1" style="text-align: center"
 +
|'''Stock number'''
 +
|'''Biobricks'''
 +
|'''Description'''
 +
|-
 +
|S163.1
 +
|rowspan="2"| B0032
 +
|rowspan="2"| RBS
 +
|-
 +
|S163.2
 +
|-
 +
|S164.1
 +
|rowspan="2"| E0422
 +
|rowspan="2"| [[Image:Icon_rbs.png]][[Image:Icon_reporter.png]][[Image:Part_icon_terminator.png]][[Image:Part_icon_terminator.png]]RBS+ ECFP+ LVA+ term
 +
|-
 +
|S164.2
 +
|-
 +
|S165.1
 +
|rowspan="2"| E0430
 +
|rowspan="2"| [[Image:Icon_rbs.png]][[Image:Icon_reporter.png]][[Image:Part_icon_terminator.png]][[Image:Part_icon_terminator.png]]RBS+ YFP+ LVA- term
 +
|-
 +
|S165.2
 +
|-
 +
|S166.1
 +
|rowspan="2"| E0432
 +
|rowspan="2"| [[Image:Icon_rbs.png]][[Image:Icon_reporter.png]][[Image:Part_icon_terminator.png]][[Image:Part_icon_terminator.png]]RBS+ YFP LVA+ term
 +
|-
 +
|S166.2
 +
|-
 +
|S167.1
 +
|rowspan="2"| E0420
 +
|rowspan="2"| [[Image:Icon_rbs.png]][[Image:Icon_reporter.png]][[Image:Part_icon_terminator.png]][[Image:Part_icon_terminator.png]]RBS+ ECFP LVA- term
 +
|-
 +
|S167.2
 +
|-
 +
|S168.1
 +
|rowspan="2"| I732078
 +
|rowspan="2"| [[Image:Icon_rbs.png]][[Image:Icon_reporter.png]][[Image:Part_icon_terminator.png]][[Image:Part_icon_terminator.png]]RBS+ mRFP LVA+ term
 +
|-
 +
|S168.2
 +
|}
 +
 +
==Miniprep of New Biobricks==
 +
*[[Team:Paris/Notebook/Protocols#Minipreps (Kit_Qiagen)| Protocol Miniprep]]
 +
{|border="1" style="text-align: center"
 +
|'''Miniprep'''
 +
|'''Biobricks'''
 +
|'''Description'''
 +
|-
 +
|MP163.1
 +
|rowspan="2"| B0032
 +
|rowspan="2"| RBS
 +
|-
 +
|MP163.2
 +
|-
 +
|MP164.1
 +
|rowspan="2"| E0422
 +
|rowspan="2"| [[Image:Icon_rbs.png]][[Image:Icon_reporter.png]][[Image:Part_icon_terminator.png]][[Image:Part_icon_terminator.png]]RBS+ ECFP+ LVA+ term
 +
|-
 +
|MP164.2
 +
|-
 +
|MP165.1
 +
|rowspan="2"| E0430
 +
|rowspan="2"| [[Image:Icon_rbs.png]][[Image:Icon_reporter.png]][[Image:Part_icon_terminator.png]][[Image:Part_icon_terminator.png]]RBS+ YFP+ LVA- term
 +
|-
 +
|MP165.2
 +
|-
 +
|MP166.1
 +
|rowspan="2"| E0432
 +
|rowspan="2"| [[Image:Icon_rbs.png]][[Image:Icon_reporter.png]][[Image:Part_icon_terminator.png]][[Image:Part_icon_terminator.png]]RBS+ YFP LVA+ term
 +
|-
 +
|MP166.2
 +
|-
 +
|MP167.1
 +
|rowspan="2"| E0420
 +
|rowspan="2"| [[Image:Icon_rbs.png]][[Image:Icon_reporter.png]][[Image:Part_icon_terminator.png]][[Image:Part_icon_terminator.png]]RBS+ ECFP LVA- term
 +
|-
 +
|MP167.2
 +
|-
 +
|MP168.1
 +
|rowspan="2"| I732078
 +
|rowspan="2"| [[Image:Icon_rbs.png]][[Image:Icon_reporter.png]][[Image:Part_icon_terminator.png]][[Image:Part_icon_terminator.png]]RBS+ mRFP LVA+ term
 +
|-
 +
|MP168.2
 +
|}
 +
 +
=='''Digestion of MP162'''==
 +
==='''Measurement of the concentration of MPs 162'''===
 +
 +
{|border="1" style="text-align: center"
 +
|'''Miniprep Name'''
 +
|'''Concentration (µg/mL)'''
 +
|'''Ratio 260/280'''
 +
|-
 +
|MP162.1
 +
|151
 +
|1.71
 +
|-
 +
|MP162.2
 +
|172
 +
|1.73
 +
|-
 +
|MP162.3
 +
|149
 +
|1.73
 +
|}
 +
 +
==='''Digestion'''===
 +
[[Team:Paris/Notebook/Protocols#Digestion |Protocol]]
 +
 +
{| Border="2"
 +
|align="center"|'''Digestion name'''
 +
|align="center"|'''Template DNA'''
 +
|align="center"|''' Enzymes '''
 +
|align="center"|'''Volume of DNA'''
 +
|-
 +
|align="center"|D165
 +
|align="center"|MP162.2
 +
|align="center"|XbaI - PstI
 +
|align="center"|5.81 µL
 +
|}
 +
 +
==='''Gel Extraction'''===
 +
[[Image:KR000185b.jpg| thumb|Gel Extraction of D165]]
 +
[[Team:Paris/Notebook/Protocols#Migration after extraction |Protocol]]
 +
 +
 +
{|border="1" style="text-align: center"
 +
|'''Well'''
 +
|'''Sample'''
 +
|'''Expected size'''
 +
|'''Measured size'''
 +
|-
 +
|1
 +
|1kb ladder
 +
|
 +
|
 +
|-
 +
|2
 +
|MP162.2
 +
|2855
 +
|style="background: #cbff7B"| 3000
 +
|-
 +
|3
 +
|no sample
 +
|
 +
|
 +
|-
 +
|4
 +
|D165.2
 +
|2057 / 798
 +
|style="background: #cbff7B"| 2000 / 800
 +
|-
 +
|5
 +
|no sample
 +
|
 +
|
 +
|-
 +
|6
 +
|100pb ladder
 +
|
 +
|
 +
|}
 +
 +
=='''Ligation'''==
 +
[[Team:Paris/Notebook/Protocols#Ligation |Protocol]]
 +
 +
{|border="1" style="text-align: center"
 +
|'''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'''==
 +
[[Team:Paris/Notebook/Protocols#culture of stable strain with biobrocks 2008 |Protocol]]
 +
 +
{|border="1" style="text-align: center"
 +
|'''Biobrick Name'''
 +
|'''Part'''
 +
|'''Description'''
 +
|-
 +
|[http://partsregistry.org/Part:BBa_B0032 B0032] in [http://partsregistry.org/Part:pSB1A2 pSB1A2]
 +
|rbs (efficiency=0.3)
 +
|[[Image:Icon_rbs.png]]
 +
|-
 +
|[http://partsregistry.org/Part:BBa_E0422 E0422] in [http://partsregistry.org/Part:pSB1A2 pSB1A2]
 +
|ECFP (LVA+)
 +
|[[Image:Icon_rbs.png]][[Image:Icon_reporter.png]][[Image:Part_icon_terminator.png]][[Image:Part_icon_terminator.png]]
 +
|-
 +
|[http://partsregistry.org/Part:BBa_E0420 E0420] in [http://partsregistry.org/Part:pSB1A2 pSB1A2]
 +
|ECFP (LVA-)
 +
|[[Image:Icon_rbs.png]][[Image:Icon_reporter.png]][[Image:Part_icon_terminator.png]][[Image:Part_icon_terminator.png]]
 +
|-
 +
|[http://partsregistry.org/Part:BBa_E0430 E0430] in [http://partsregistry.org/Part:pSB1A2 pSB1A2]
 +
|EYFP (LVA-)
 +
|[[Image:Icon_rbs.png]][[Image:Icon_reporter.png]][[Image:Part_icon_terminator.png]][[Image:Part_icon_terminator.png]]
 +
|-
 +
|[http://partsregistry.org/Part:BBa_E0432 E0432] in [http://partsregistry.org/Part:pSB1A2 pSB1A2]
 +
|EYFP (LVA+)
 +
|[[Image:Icon_rbs.png]][[Image:Icon_reporter.png]][[Image:Part_icon_terminator.png]][[Image:Part_icon_terminator.png]]
 +
|-
 +
|[http://partsregistry.org/Part:BBa_I732078 I732078] in [http://partsregistry.org/Part:pSB1A3 pSB1A3]
 +
|mRFP1 (LVA+)
 +
|[[Image:Icon_rbs.png]][[Image:Icon_reporter.png]][[Image:Part_icon_terminator.png]][[Image:Part_icon_terminator.png]]
 +
|-
 +
|[http://partsregistry.org/Part:BBa_I13507 I13507] in [http://partsregistry.org/Part:pSB1A2 pSB1A2]
 +
|mRFP1 (LVA-)
 +
|[[Image:Icon_rbs.png]][[Image:Icon_reporter.png]][[Image:Part_icon_terminator.png]][[Image:Part_icon_terminator.png]]
 +
|}
 +
 +
=Construction of pFlgA - YFP tripart=
=Construction of pFlgA - YFP tripart=

Revision as of 17:43, 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

Digestion of MP162

Measurement of the concentration of MPs 162

Miniprep Name Concentration (µg/mL) Ratio 260/280
MP162.1 151 1.71
MP162.2 172 1.73
MP162.3 149 1.73

Digestion

Protocol

Digestion name Template DNA Enzymes Volume of DNA
D165 MP162.2 XbaI - PstI 5.81 µL

Gel Extraction

Gel Extraction of D165

Protocol


Well Sample Expected size Measured size
1 1kb ladder
2 MP162.2 2855 3000
3 no sample
4 D165.2 2057 / 798 2000 / 800
5 no sample
6 100pb ladder

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
B0032 in pSB1A2 rbs (efficiency=0.3) Icon rbs.png
E0422 in pSB1A2 ECFP (LVA+) Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.png
E0420 in pSB1A2 ECFP (LVA-) Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.png
E0430 in pSB1A2 EYFP (LVA-) Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.png
E0432 in pSB1A2 EYFP (LVA+) Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.png
I732078 in pSB1A3 mRFP1 (LVA+) Icon rbs.pngIcon reporter.pngPart icon terminator.pngPart icon terminator.png
I13507 in 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 Team:Paris/August 19 yesterday

Number of colonies

Name Antibio Number of colonies
Retrieved from "http://2008.igem.org/Team:Paris/August_20"