150. Culture for miniprep of C2 v2 and B1 v2
151. Digestion of B2, E1 and C2 from the 4th of August
152. Electrophoresis with the results of digestion
153. PCR of inserts A1⁄A2⁄D1⁄D2
154. Gel extraction of A1⁄A2⁄D1⁄D2
155. Gel extraction of B2, E1 and E2
156. Resuspension of inserts B2⁄E1⁄E2
157. Ligation of inserts B2⁄E1⁄E2 with pET 43.1a(+)
158. Miniprep of C2 v2 (TOP 10) and B1 v2 (TOP 10 )
159. Miniprep preculture of C1 v2 in pET 43.1a(+)
160. Preparation of 10 aliquots of carbenicillin at 50 ng⁄m
161. Electrophoresis of the PCR done on the 8th of August with A1⁄A2⁄D1⁄D2
162. Transformation of A1⁄A2⁄D1⁄D2 in TOP 10
164. Transformation of E1⁄E2 and B2 in TOP 10
165. Miniprep of C1 v2 (culture from the 9 of August)
166. Digestion of C1 v2 before electrophoresis
167. Digestion of pET 43.1 (a+) with XbaI and HindIII
168. Electrophoresis and gel extraction
169. Electrophoresis of C1 digested
170. Transformation of B2 (4, 7 and 9), E1 (1 and 2) and E2 (2, 3, 4, 5, 6 and 7)
171. Aliquot of antibodies 462
172. Culture of A1⁄A2⁄D1⁄D2
173. Ligation of A1⁄A2⁄D1⁄D2 in TOPO
174. Transformation of A1⁄A2⁄D1⁄D2 with TOPO in TOP 10 competent cells
175. Transformation of B1 and C2 in BL21DE3
176. Dosage of digested pET 43.1 (a+)
177. Transformation of C2 and B1 in pET 43.1a(+) and DH3α
178. Absorbance of precultures C2 (1, 2, 3) and B1 (1, 2, 16)
179. Dephosphorylation of pET 43.1a(+) digested on the 10th of August
180. Miniprep of B1⁄E1⁄E2 in TOPO
181. Transformation of B1 colony 8 and C2 colony 16 in pET 43.1 (a+) and in DH 3α
182. Precultures of B1 v2 and C2 v2
183. Digestion of pET 43.1 (a+) with XbaI and HindIII
August 12, 2016:
184. Miniprep from precultures of B2⁄E1⁄E2 in TOPO
185. Digestion of inserts B2⁄E1⁄E2 with XbaI and HindIII
186. Culture of C2 and B1 in 1 l of LB
187. Agarose gel to analyse digestion of pET 43.1 (a+) done on the 11th of August
Aim: As the transformations did not work (B2, E1 and E2 in pET 43.1 (a+) ) with TOP 10 competent cells, we take the products of the midiprep done on the 4th of August and we digest before redoing the transformation.
Protocol: follow in this link
What we did in the lab:
Materials:
• Restriction enzymes: Xba I, Hind III (New England Biolabs, NEB)
• Restriction enzyme buffers
• 37 &176;C water bath
• Shaking incubator (INFORS HT)
• Microbiology equipment (type of incubator, Bunsen burner, water bath, etc… Follow this link)
Method:
1. Realize a Mastermix and store it on ice :
Reactants | Volumes (µl) |
---|---|
XbaI |
30 |
HindIII |
30 |
Buffer 2.1 |
90 |
Distilled water |
90 |
Total |
150 |
Aim: Increase the quantity of insert.
Protocol: follow in this link
What we did in the lab:
Materials:
• Microbiology equipment (type of incubator, Bunsen burner, water bath, etc… Follow this link)
• 1.5 ml eppendorfs
• Takara enzyme
• Primers S and AS
• dNTP
• Buffer 6 X
• Distilled water
• MgCl2
Method:
1. Prepare the following tubes :
Mix with two primers | Mix with primer S only | Mix with primer AS only | |
---|---|---|---|
Takara enzyme (µl) |
6 | 6 | 6 |
Primer S (µl) |
6 | 6 | Ø |
Primer AS (µl) |
6 | Ø | 6 |
MgCl2 (µl) |
15 | 15 | 15 |
dNTP (µl) |
15 | 15 | 15 |
Buffer (µl) |
30 | 30 | 30 |
H2O (µl) |
216 | 222 | 222 |
Total (µl) |
294 | 294 | 294 |
Mix with two primers | Mix with primer S only | Mix with primer AS only | |
---|---|---|---|
A1 |
tube 1 | tube 2 | tube 3 |
A2 |
tube 4 | tube 5 | tube 6 |
D1 |
tube 7 | tube 8 | tube 9 |
D2 |
tube 10 | tube 11 | tube 12 |
Aim: Get back purified DNA.
Protocol: follow in this link
What we did in the lab:
Materials:
• Gel of B2⁄E1⁄E2
• QIAGEN Extraction gel kit
Method:
Follow the Qiagen Extraction gel kit steps with :
DNA | Colonies | Weight of the gel (mg) |
---|---|---|
B2 |
Colony 4 | 367 |
Colony 7 | 432 | |
Colony 9 | 269 | |
E2 |
Colony 1 | 300 |
Colony 2 | 355 | |
Colony 3 | 354 | |
Colony 4 | 314 | |
Colony 5 | 299 | |
Colony 6 | 275 | |
Colony 7 | 277 | |
E1 |
Colony 1 | 404 |
Colony 2 | 321 |
Aim: Storage of the inserts.
Protocol: follow in this link
What we did in the lab:
Materials:
• NaAc
• Ethanol 70 %
• Inserts B2⁄E1⁄E2
Method:
1. Use 1/10 volume of NaAc and 2.5 colume of ethanol for each insert :
B2 | E1 | E2 | |
---|---|---|---|
NaAc (µl) |
15 | 10 | 35 |
Ethanol (µl) |
875 | 250 | 375 |
Aim: Prepare the transformation.
Protocol: follow in this link
What we did in the lab:
Materials:
• Microbiology equipment (type of incubator, Bunsen burner, water bath, etc… Follow this link)
• Inserts B 2 /E 1 /E 2
• pET 43.1 (a+)
• TOP 10 X
• Distilled water
• Ligase
Method:
Use the following volumes :
E1 | E2 | B2 | pET 43.1 (a+) | |
---|---|---|---|---|
E1 (µl) |
15 | Ø | Ø | Ø |
E2 (µl) |
Ø | 15 | Ø | Ø |
B2 (µl) |
Ø | Ø | 15 | Ø |
pET 43.1 (a+) (µl) |
4 | 4 | 4 | 4 |
Ligase (µl) |
1 | 1 | 1 | 1 |
TOP 10 X (µl) |
2.2 | 2.2 | 2.2 | 2.2 |
H2O (µL) |
> Ø | > Ø | > Ø | > 15 |
> Vtotal (µL) |
> 22.2 | > 22.2 | > 22.2 | > 22.2 |
Aim: Increase the quantity of DNA.
Protocol: follow in this link
What we did in the lab:
Materials:
• Microbiology equipment (type of incubator, Bunsen burner, water bath, etc… Follow this link)
• Qiagen Miniprep kit
• Digestion enzyme XbaI and HindIII
• Digestion buffer 2.1
• 1.5 ml eppendorfs
• Electrophoresis cuve
• Distilled water
Method:
1. Use the Qiagen kit for our cultures from the 8th of August :
13 eppendorfs of B1.
20 eppendorfs of C2.
2. Digest the plasmid with the following volumes for each sample :
Volumes (µl) | |
---|---|
DNA |
5 |
XbaI |
1 |
HindIII |
1 |
Buffer 2.1 |
2 |
H2O |
11 |
Total |
20 |
Aim: Split the insert and the plasmid.
Protocol: follow in this link
What we did in the lab:
Materials:
• Microbiology equipment (type of incubator, Bunsen burner, water bath, etc… Follow this link)
• Qiagen Miniprep kit
• Digestion enzyme XbaI and HindIII
• Digestion buffer 2 X
• 1.5 ml eppendorfs
• Distilled water
• Shaking incubator (INFORS HT)
Method:
1. Realize a master mix with :
Volumes (µl) | |
---|---|
XbaI |
20 |
HindIII |
20 |
Buffer 2 X |
40 |
H2O |
220 |
Total |
300 |
Aim: We want to produce 5 μ g of dephosphorylated pET 43.1 (a+) from pET 43.1 (a+) at 400 ng⁄ml and we start with the digestion.
Protocol: follow in this link
What we did in the lab:
Materials:
• Microbiology equipment (type of incubator, Bunsen burner, water bath, etc… Follow this link)
• Qiagen Miniprep kit
• Digestion enzyme XbaI and HindIII
• CutSmart buffer
• 1.5 ml eppendorfs
• Distilled water
• Shaking incubator (INFORS HT)
Method:
1. Put all the following reactants in a 1.5 ml eppendorf and let digest one hour at 37 °C :
Volumes (µl) | |
---|---|
DNA |
12.5 |
XbaI |
2 |
HindIII |
4 |
Buffer CutSmart |
5 |
H2O |
26.5 |
Total |
50 |
Aim: To produce proteins.
Protocol: follow in this link
What we did in the lab:
Materials:
• Spectrophotometer Ultrospec 3100
• iPTG at 0.5 M
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Method:
1. Make two measures separated of 30 minutes :
Sample | 1 | 2 | 3 | 4 | 5 | 6 | Time of addition of iPTG | Concentration (ng⁄μl) |
---|---|---|---|---|---|---|---|---|
B1 (1) |
0.022 | 0.062 | 0.152 | 0.344 | 0.557 | 0.694 | 16 h 55 | 0.859 |
B1 (2) |
0.185 | 0.417 | 0.693 | 15 h 25 | 0.956 | |||
B1 (3) |
0.075 | 0.211 | 0.413 | 0.688 | 15 h 55 | 0.920 | ||
C2 (1) |
0.060 | 0.166 | 0.350 | 0.627 | 0.699 | 16 h 25 | 0.905 | |
C2 (2) |
0.044 | 0.119 | 0.296 | 0.510 | 0.698 | 16 h 25 | 0.910 | |
C2 (16) |
0.080 | 0.230 | 0.445 | 0.689 | 15 h 55 | 0.907 |
Aim: Make the future ligation easier.
Protocol: follow in this link
What we did in the lab:
Materials:
• Microbiology equipment (type of incubator, Bunsen burner, water bath, etc… Follow this link)
• onSAP
• CutSmart buffer
• 1.5 ml eppendorfs
• Distilled water
• Shaking incubator (INFORS HT)
Method:
Method
1. Start with tube 2 (8.6 ng⁄μl in 46 μl) and use the following mix :
Volumes ( μl) | |
---|---|
DNA |
46 |
CutSmart |
6 |
H2O |
6.7 |
onSAP |
1.3 |
Total |
60 |
Aim: Check if the colonies we took contain the insert.
Protocol: follow in this link
What we did in the lab
What we did in the lab
Materials
• Microbiology equipment (type of incubator, Bunsen burner, water bath, etc… Follow this link)
• Digestion enzyme XbaI and HindIII
• Digestion buffer 2.1
• 1.5 ml eppendorfs
• Distilled water
• Shaking incubator (INFORS HT)
• Inserts B2⁄E1⁄E2
Method
1. In a 1.5 ml eppendorf, put :
Volumes (μl) | |
---|---|
DNA |
5 |
XbaI |
1 |
H2O |
11 |
HindIII |
1 |
Buffer 2.1 |
2 |
Total |
20 |