Team:Heidelberg/Templates/Del week15 G

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Contents

07-08-2013

Amplification from FS_08 to FS_23; 6.5 kb

Amplifcation of DelAF(I), DelFG, DelG (07.08); run at 100 V, 0.8 % gel (TAE)
Amplifcation of DelAF(I), DelFG, DelG (07.08), cut
Reaction
what µl
D. acidovorans SPH-1 1
FS_08: (1/10) 2
FS_23: (1/10) 2
Phusion flash Master Mix 10
dd H2O 4
DMSO 1
Conditions
Biorad MyCycler
Cycles temperature [°C] Time [s]
1 98 10
12 98 1
66 ↓ 0.5 5
72 3:20
18 98 1
64 5
72 3:20
1 72 10min
1 12 inf

Results:

  • Amplification of DelG was successful
  • bands were cut out and DNA purified using QIAquick Gel Extraction Kit

Amplification from SR_01 to FS_23; 6.2 kb

Amplifcation of DelAF and DelG; run at 100 V, 0.8 % gel (TAE)(07.08)
Amplifcation of DelG (SR01-FS23), pSB4K5 and DelAFII; run at 100 V, 0.8 % gel (TAE)(07.08)
Amplifcation of DelG (SR01-FS23), pSB4K5 and DelAFII cut; run at 100 V, 0.8 % gel (TAE)(07.08)
Reaction
what µl
D. acidovorans SPH-1 1
SR_01: (1/10) 2
FS_23: (1/10) 2
Phusion flash Master Mix 10
DMSO 1
dd H2O 4
Conditions
Biorad T100
Cycles temperature [°C] Time [s]
1 98 10
12 98 1
66 ↓ 0.5 5
72 3:20
18 98 1
64 5
72 3:20
1 72 10min
1 12 inf

Results:

  • Amplification of DelG was successful
  • bands were cut out and DNA purified using QIAquick Gel Extraction Kit

08-08-2013

Restriction digest of fragment SR_01 to FS_23; 6.2 kb; 07-08-2013 with BglII

Restriction digest of DelG (SR01-FS23), DelG (FS21-FS26) and DelOP; run at 100 V, 0.8 % gel (TAE)(07.08)

Incubation at room temperature for about 4h and at 37°C for 1 hours

what µl
SR_01 to FS_23 (07-08-2013) 20
BglII 1
Buffer 3.1 3
dd H2O 6
Expected fragment lengths [bp] 3415, 3115

Results:

  • Restriction digest of DelG (SR_01 to FS_23) worked out as predicted, PCR-fragment will be sequenced before potential Gibson Assembly

Concentration measurement

Fragment Primer Date PCR Concentration
DelG SR01-FS23 07-08-2013 34.9 ng/µl
DelG FS08-FS23 07-08-2013 25.6 ng/µl

09-08-2013

Amplification from SR_01 to FS_23; 6.2 kb

Amplifcation of DelAF and DelG; run at 100 V, 0.8 % gel (TAE)(09.08)
Reaction
what µl
D. acidovorans SPH-1 1
SR_01: (1/10) 2
FS_23: (1/10) 2
Phusion flash Master Mix 10
DMSO 1
dd H2O 4
Conditions
Biorad T100
Cycles temperature [°C] Time [s]
1 98 10
12 98 1
66 ↓ 0.5 5
72 3:20
18 98 1
64 5
72 3:20
1 72 10min
1 12 inf

Results:

  • Amplification of DelG did not work
  • Amplification will be repeated as the protocol was established and carried out successfully several times before, so a pipetting error might be the reason of the failure
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