Team:Paris/August 16

From 2008.igem.org

(Difference between revisions)
(→Digestion check from yesterday)
 
(34 intermediate revisions not shown)
Line 1: Line 1:
{{Paris/Calendar_Links|August 15|August 17}}
{{Paris/Calendar_Links|August 15|August 17}}
-
==''' Analysis of the transformation we did [[Team:Paris/August_15#Transformation_of_the_ligations_we_did__yesterday| yesterday]]'''==
+
=Construction of OmpR*+RBS and EnvZ*+RBS: '''Ligations=
 +
==='''Cleaning of the DNA after the digestion'''===
 +
We used the QIAcube to wash the DNA, following the [[Team:Paris/Notebook/Protocols#Purification_.28Kit_Promega.29|standard protocol.]]
 +
 
 +
==='''Measure of DNA concentration of the digestion products'''===
 +
We used the biophotometer.<br>
 +
'''Settings:'''
 +
*10 µL of template DNA in 50 µL of pure water
 +
*Blank : 10 µL of EB buffer in 50 µL of water.
 +
{||- style="text-align: center;" border="1"
 +
|align="center"|'''Digestion name'''
 +
|align="center"|'''What's in ?'''
 +
|'''Enzymes'''
 +
|align="center"|'''DNA C° (ng/µL)'''
 +
|-
 +
|align="center"|D 158
 +
|align="center"| OmpR*
 +
|XbaI-PstI
 +
|align="center"| 12
 +
|-
 +
|align="center"|D 159
 +
|align="center"| EnvZ*
 +
|XbaI-PstI
 +
|align="center"| 7
 +
|-
 +
|align="center"|D 102
 +
|align="center"|B0034
 +
|SpeI-PstI
 +
|align="center"| 16
 +
|}
 +
 
 +
==='''List of ligations'''===
 +
 
 +
* We ligated the DNA following the [[Team:Paris/Notebook/Protocols#Ligation|standard protocol]].
 +
* T5 is the autoligation control for L148 and L149.
 +
 
 +
{| style="text-align: center;"  Border="2"
 +
|'''Ligation name'''
 +
|'''Insert name '''
 +
|'''V<sub>insert</sub> µL'''
 +
|'''Vector name'''
 +
|'''V<sub>Vector</sub> µL'''
 +
|-
 +
|L 148 (Amp)
 +
|D 158 (OmpR*)
 +
|4
 +
|D 102 (B0034)
 +
|3
 +
|-
 +
|L 149 (Amp)
 +
|D 159 (EnvZ)
 +
|7
 +
|D 102 (B0034)
 +
|3
 +
|}
 +
 
 +
 
 +
 
 +
=Creation of a registry of pFliL, pFlhDC, and ''FlhDC''=
 +
== Analysis of the transformation we did [[Team:Paris/August_15#Transformation_of_the_ligations_we_did__yesterday| yesterday]]==
L143, L144, T1 and T2 showed no colonies. The positive control with pUC19 worked well.
L143, L144, T1 and T2 showed no colonies. The positive control with pUC19 worked well.
<br>We suppose that the ligation did not work. We will do it again today.
<br>We suppose that the ligation did not work. We will do it again today.
-
=='''Ligation'''==
+
==Cleaning of the DNA after the digestion==
 +
We used the QIAcube to wash the DNA, following the [[Team:Paris/Notebook/Protocols#Purification_.28Kit_Promega.29|standard protocol.]]
-
=='''Transformation'''==
+
==Measure of DNA concentration of the digestion products==
 +
We used the biophotometer.<br>
 +
'''Settings:'''
 +
*10 µL of template DNA in 50 µL of pure water
 +
*Blank : 10 µL of EB buffer in 50 µL of water.
 +
{| Border="2"
 +
|align="center"|'''Digestion name'''
 +
|align="center"|'''What's in ?'''
 +
|align="center"|'''DNA concentration (ng/µL)'''
 +
|-
 +
|align="center"|D 149
 +
|align="center"|pfliL
 +
|align="center"| 2
 +
|-
 +
|align="center"|D 150
 +
|align="center"|pfliL
 +
|align="center"| 3
 +
|-
 +
|align="center"|D 151
 +
|align="center"|pSB3K3
 +
|align="center"| 12
 +
|-
 +
|align="center"|D 152
 +
|align="center"|pSB3K3
 +
|align="center"| 20
 +
|-
 +
|align="center"|D 153
 +
|align="center"|gene flhDC
 +
|align="center"| 7
 +
|-
 +
|align="center"|D 154
 +
|align="center"|gene flhDC
 +
|align="center"| 12
 +
|-
 +
|align="center"|D 155
 +
|align="center"|pflhDC
 +
|align="center"| 16
 +
|-
 +
|align="center"|D 136
 +
|align="center"|j61002
 +
|align="center"| 12
 +
|-
 +
|align="center"|D 145
 +
|align="center"|pSB1A2
 +
|align="center"| 21
 +
|}
 +
 
 +
==List of ligations==
 +
 
 +
* We ligated the DNA following the [[Team:Paris/Notebook/Protocols#Ligation|standard protocol]].
 +
* T1, T2, T3 and T4 are the autoligation controls for L 143, L144, L145 and L147
 +
 
 +
{| style="text-align: center;"  Border="2"
 +
|'''Ligation name'''
 +
|'''Insert name '''
 +
|'''V<sub>insert</sub> µL'''
 +
|'''Vector name'''
 +
|'''V<sub>Vector</sub> µL'''
 +
|-
 +
|L 143 (Kan)
 +
|D 149 (pfliL)
 +
|8
 +
|D 137 (pSB3K3)
 +
|4
 +
|-
 +
|L 144 (Kan)
 +
|D 150 (pfliL)
 +
|5
 +
|D 152 (pSB3K3)
 +
|2.5
 +
|-
 +
|L 145 (Amp)
 +
|D 153 (g flhDC)
 +
|10
 +
|D 145 (pSB1A2)
 +
|2.5
 +
|-
 +
|L 146 (Amp)
 +
|D 154 (g flhDC)
 +
|5
 +
|D 145 (pSB1A2)
 +
|2.5
 +
|-
 +
|L 147 (Amp)
 +
|D 155 (p flhDC)
 +
|1
 +
|D 136 (J61002)
 +
|4
 +
|}
 +
 
 +
=Construction of pLas-TetR-GFP tripart & rbs-LasR-dble ter=
 +
==Transformation==
[[Team:Paris/Notebook/Protocols#Transformation |Transformation protocol]]
[[Team:Paris/Notebook/Protocols#Transformation |Transformation protocol]]
Line 39: Line 190:
|pUC19
|pUC19
|Amp
|Amp
 +
|}
 +
 +
 +
==Digestion check from yesterday==
 +
[[Image:16-08-08.png|thumb|]]
 +
[[Team:Paris/Notebook/Protocols#Digestion|Protocol Digestion]]
 +
 +
{| border="1" style="text-align: center"
 +
|Digestion name
 +
|Plasmid
 +
|Description
 +
|Miniprep used
 +
|Expected size
 +
|Measured size
 +
|-
 +
|
 +
|MP3
 +
|B0015 (double terminator B0010-B0012) - FV
 +
|4
 +
|No bands
 +
|-
 +
|D164
 +
|MP101
 +
|promoter J23101 - BV
 +
|1
 +
|
 +
|style="background: #cbff7B"|
 +
|-
 +
|D161
 +
|MP104
 +
|PTet (Tet promoter) - FI
 +
|1
 +
|
 +
|style="background: #cbff7B"|
 +
|-
 +
|D162
 +
|MP114
 +
|TetR - BI
 +
|1
 +
|
 +
|style="background: #cbff7B"|
 +
|-
 +
|D163
 +
|MP143
 +
|gfp generator - BV
 +
|2
 +
|
 +
|style="background: #cbff7B"|
|}
|}

Latest revision as of 18:08, 4 September 2008

← Yesterday

↓ Calendar ↑

Tomorrow →

Contents

Construction of OmpR*+RBS and EnvZ*+RBS: Ligations

Cleaning of the DNA after the digestion

We used the QIAcube to wash the DNA, following the standard protocol.

Measure of DNA concentration of the digestion products

We used the biophotometer.
Settings:

  • 10 µL of template DNA in 50 µL of pure water
  • Blank : 10 µL of EB buffer in 50 µL of water.
Digestion name What's in ? Enzymes DNA C° (ng/µL)
D 158 OmpR* XbaI-PstI 12
D 159 EnvZ* XbaI-PstI 7
D 102 B0034 SpeI-PstI 16

List of ligations

  • We ligated the DNA following the standard protocol.
  • T5 is the autoligation control for L148 and L149.
Ligation name Insert name Vinsert µL Vector name VVector µL
L 148 (Amp) D 158 (OmpR*) 4 D 102 (B0034) 3
L 149 (Amp) D 159 (EnvZ) 7 D 102 (B0034) 3


Creation of a registry of pFliL, pFlhDC, and FlhDC

Analysis of the transformation we did yesterday

L143, L144, T1 and T2 showed no colonies. The positive control with pUC19 worked well.
We suppose that the ligation did not work. We will do it again today.

Cleaning of the DNA after the digestion

We used the QIAcube to wash the DNA, following the standard protocol.

Measure of DNA concentration of the digestion products

We used the biophotometer.
Settings:

  • 10 µL of template DNA in 50 µL of pure water
  • Blank : 10 µL of EB buffer in 50 µL of water.
Digestion name What's in ? DNA concentration (ng/µL)
D 149 pfliL 2
D 150 pfliL 3
D 151 pSB3K3 12
D 152 pSB3K3 20
D 153 gene flhDC 7
D 154 gene flhDC 12
D 155 pflhDC 16
D 136 j61002 12
D 145 pSB1A2 21

List of ligations

  • We ligated the DNA following the standard protocol.
  • T1, T2, T3 and T4 are the autoligation controls for L 143, L144, L145 and L147
Ligation name Insert name Vinsert µL Vector name VVector µL
L 143 (Kan) D 149 (pfliL) 8 D 137 (pSB3K3) 4
L 144 (Kan) D 150 (pfliL) 5 D 152 (pSB3K3) 2.5
L 145 (Amp) D 153 (g flhDC) 10 D 145 (pSB1A2) 2.5
L 146 (Amp) D 154 (g flhDC) 5 D 145 (pSB1A2) 2.5
L 147 (Amp) D 155 (p flhDC) 1 D 136 (J61002) 4

Construction of pLas-TetR-GFP tripart & rbs-LasR-dble ter

Transformation

Transformation protocol

Name Description Antibio
Ligations
L150 D105(BV) - D146(BI)
pLas - strongest rbs-TetR-GFP tripart 		Amp
L151 D147(FI) - D125 (FV)
strongest rbs-LasR activator with LVA - Double terminator 		Kan
Controls
C1 D105 Amp
C2 D125 Kan
Positive Control pUC19 Amp


Digestion check from yesterday

16-08-08.png

Protocol Digestion

Digestion name Plasmid Description Miniprep used Expected size Measured size
MP3 B0015 (double terminator B0010-B0012) - FV 4 No bands
D164 MP101 promoter J23101 - BV 1
D161 MP104 PTet (Tet promoter) - FI 1
D162 MP114 TetR - BI 1
D163 MP143 gfp generator - BV 2
Retrieved from "http://2008.igem.org/Team:Paris/August_16"