Team:TU Delft/6 July 2010 content
From 2010.igem.org
Contents |
Lab work
Ordered DNA stocks
The DNA from Mr Gene has finally arrived, now we're ready to build some biobricks!
We were so excited; we immediately dissolved the DNA in water and performed a transformation with 100 ng of the DNA and plated on the LB agar containing the appropriate antibiotic.
- AlkB2 (Ampicillin)
- rubA3 (Ampicillin)
- rubA4 (Ampicillin)
- rubB (Kanamycin)
- ladA (Ampicillin)
- ADH (Ampicillin)
- ALDH (Kanamycin)
- bbc1 (Ampicillin)
- AlnA (Ampicillin)
- OprG (Ampicillin)
- PalkS1-2 (Ampicillin)
- PalkB (Ampicillin)
- P(CaiF) (Ampenicillin)
- AlkS (Kanamycin)
- PhPFD-α (Ampicillin)
- PhPFD-β (Ampicillin)
Characterization of Anderson RBS sequences
Yesterday's purified PCR product of I13401 and the Anderson RBS Biobricks (J61100, J61101, J61107, J61117 and J61127) were digested:
# | Sample | Enzyme 1 | Enzyme 2 | Buffer | BSA | Needed fragment |
C1 | 1.15 μg J61100 | SpeI | PstI | 2 (BioLabs) | ✓ | ‘S–J61100 pSB1A2–P’ |
C2 | 1.68 μg J61101 | SpeI | PstI | 2 (BioLabs) | ✓ | ‘S–J61101 pSB1A2–P’ |
C3 | 1.30 μg J61107 | SpeI | PstI | 2 (BioLabs) | ✓ | ‘S–J61107 pSB1A2–P’ |
C4 | 0.95 μg J61117 | SpeI | PstI | 2 (BioLabs) | ✓ | ‘S–J61117 pSB1A2–P’ |
C5 | 0.51 μg J61127 | SpeI | PstI | 2 (BioLabs) | ✓ | ‘S–J61127 pSB1A2–P’ |
D1 | 2.59 μg I13401 | XbaI | PstI | 2 (BioLabs) | ✓ | ‘X–I13401–P’ |
D2 | 2.65 μg I13401 | XbaI | PstI | 2 (BioLabs) | ✓ | ‘X–I13401–P’ |
The digestion products were purified using Roche's PCR Purifiation Kit and loaded onto a 1% agarose gel for comparison with the non-digested BioBricks:
Lane description:
# | Description | Expected Length (bp) | Status |
M1 | SmartLadder marker (5 μL) | n/a | n/a |
1 | Undigested J61100 in pSB1A2 | 2134 | ✓ |
3 | Undigested J61101 in pSB1A2 | 2134 | ✓ |
4 | J61100 + SpeI + PstI | 18, 2116 | ✓ |
5 | J61101 + SpeI + PstI | 18, 2116 | ✓ |
6 | Undigested J61107 in pSB1A2 | 2134 | ✓ |
7 | J61107 + SpeI + PstI | 18, 2116 | ✓ |
8 | Undigested J61117 in pSB1A2 | 2134 | ✓ |
9 | J61117 + SpeI + PstI | 18, 2116 | ✓ |
10 | Undigested J61127 in pSB1A2 | 2134 | ✓ |
11 | J61127 + SpeI + PstI | 18, 2116 | ✓ |
12 | Undigested I13401 in pSB1A2 | 2936 | ✓ |
13 | I13401 + XbaI + PstI | 883, 2053 | ✓ |
14 | empty | empty | empty |
15 | BioRad EZ Load | n/a | n/a |
Followed by over night ligation:
# | BioBrick | Recipient plasmid | Fragment | Final volume |
1 | K398500A | 130 μg ‘S–J61100 pSB1A2–P’ | 154 μg ‘X-I13401-P’ | 26 μL |
2 | K398501A | 206 μg ‘S–J61101 pSB1A2–P’ | 247 μg ‘X-I13401-P’ | 25 μL |
3 | K398502A | 196 μg ‘S–J61107 pSB1A2–P’ | 247 μg ‘X-I13401-P’ | 25 μL |
4 | K398503A | 201 μg ‘S–J61117 pSB1A2–P’ | 247 μg ‘X-I13401-P’ | 25 μL |
5 | K398504A | 202 μg ‘S–J61127 pSB1A2–P’ | 247 μg ‘X-I13401-P’ | 25.5 μL |
6 | negative control | 123 μg ‘S–J61117 pSB1A2–P’ | - | 15 μL |
To all samples one-tenth of the total volume ligase buffer was added.
Emulsifier
Pieter is testing different condition for the emulsifying Assay. To determine the emulsifying activity we set up a calibration curve with SDS. He prepared the following samples:
# | Hexane (mL) | Tris Buffer pH 8 (mL) | 10% SDS (mL) |
B | 1 | 1.1 | 0 |
100 | 1 | 1 | 0.1 |
50 | 1 | 1.05 | 0.05 |
25 | 1 | 1.075 | 0.025 |
10 | 1 | 1.09 | 0.01 |
5 | 1 | 1.095 | 0.005 |
Kampioenen!!!!
Today the Dutch team will play the semi-final of the World Cup! Hear us cheer! Stop sound