"
Team:TU Darmstadt/Labjournal/Metabolism
From 2012.igem.org
(Difference between revisions)
(→week 7 (25.-29.06.12)) |
(→week 7 (25.-29.06.12)) |
||
| Line 168: | Line 168: | ||
** We inoculated 50 mL [[LB-medium]]-ampicilin with 10 µl of the glycerine stock BBa_J23100-xylE-dT | ** We inoculated 50 mL [[LB-medium]]-ampicilin with 10 µl of the glycerine stock BBa_J23100-xylE-dT | ||
** After [[incubation]] we centrifuged the culture at 4600x g for 10 minutes | ** After [[incubation]] we centrifuged the culture at 4600x g for 10 minutes | ||
| - | ** We resuspended the pellet with the 1000 µL pipette in 3 mL PBS buffer and | + | ** We resuspended the pellet with the 1000 µL pipette in 3 mL PBS buffer and added PBS to 120 ml |
| + | ** We added 2 mL of 0.5 M catechol solution to the cell suspension | ||
| + | ** We observed a colour change colourless to light yellow | ||
===week 8 (02.-06.07.12)=== | ===week 8 (02.-06.07.12)=== | ||
Revision as of 11:35, 9 September 2012
week 1 (14.-18.05.12)
tphA1
- No work progress
tphA2
- No work progress
tphA3
- No work progress
tphB
- No work progress
aroY
- No work progress
Other
- Reconstitution of C. testosteroni KF-1 according to DSMZ [http://www.dsmz.de/fileadmin/Bereiche/Microbiology/Dateien/Kultivierungshinweise/engl_Opening.pdf protocol]
- Cultivation of C. testosteroni KF-1 on agar plates with Medium 1
- Production of chemically competent E. coli DH5α and E. coli BL21(DE3)pLysS cells
week 2 (21.-25.05.12)
tphA1
- Isolation of the gene from C. testosteroni KF-1 genome using colony-PCR
- Annealing temperature: 49 °C
- Primer: tphA1-l-F and tphA1-l-R
tphA2
- No work progress
tphA3
- Isolation of the gene from C. testosteroni KF-1 genome using colony-PCR
- Annealing temperature: 59 °C
- Primer: tphA3-l-F and tphA3-l-R
tphB
- Isolation of the gene from C. testosteroni KF-1 genome using colony-PCR
- Annealing temperature: 59 °C
- Primer: tphB-l-F and tphB-l-R
aroY
- No work progress
Other
- Transformation and midi prep of all used Biobricks
- Concentrations measured by Nanoprop
Biobrick Concentration [ng/µl] BBa_K316003 - BBa_J23100 - BBa_B0015 - BBa_J61101 -
week 3 (28.05.-01.06.12)
tphA1
- Two PCRs were performed to mutate the PstI site in the wild type gene. The primer tphA1-l-PstI(99)-R and tphA1-l-PstI(99)-F respectively introduced a BsaI site
- tphA1 fragment 1
- PCR on tphA1 isolated from C. tesosteroni
- Annealing temperature: 69 °C
- Primer: tphA1-l-PstI(99)-R and tphA1-l-R
- tphA1 fragment 2
- PCR on tphA1 isolated from C. tesosteroni
- Annealing temperature: 69 °C
- Primer: tphA1-l-PstI(99)-F and tphA1-l-F
- Both PCR products were purified via gel extraction
- Concentrations measured by Nanoprop
PCR product Concentration [ng/µl] Fragment 1 - Fragment 2 -
- Both fragments were cut with BsaI in a restriction digest
- The ligation mix differed from our standard protocol in the following manner
- 100 ng of fragment 1
- 200 ng of fragment 2
- 2 µL of 10x reaction buffer
- 1 µL of T4 DNA ligase
- add DI water up to 20 µL
- incubate for 15 minutes at 37 °C
- PCR on ligation mix
- Annealing temperature: 59 °C
- Primer: tphA1-l-R and tphA1-l-F
- The PCR product was purified via gel extraction
- Concentrations measured by Nanoprop
- The ligation mix differed from our standard protocol in the following manner
PCR product Concentration [ng/µl] Mutated tphA1 -
tphA2
- No work progress
tphA3
- No work progress
tphB
- No work progress
aroY
- No work progress
Other
week 4 (04.-08.06.12)
tphA1
tphA2
tphA3
tphB
aroY
Other
- Restriction digest of BBa_K316003 by EcoRI and PstI
- Purification of plasmid backbone pSB1C3 via gel extraction
- Concentrations measured by Nanoprop
Plamid backbone Concentration [ng/µl] pSB1C3 -
- Restriction digest of BBa_K316003 by XbaI and PstI
- Purification of insert xylE-dT via gel extraction
- Concentrations measured by Nanoprop
Plamid backbone Concentration [ng/µl] xylE-dT -
week 5 (11.-15-06.12)
tphA1
tphA2
tphA3
tphB
aroY
Other
- Restriction digest of BBa_J23100 by SpeI and PstI
- Dephosphorylation of the restriction digest
- Ligation of BBa_J23100 (cut with SpeI and PstI) and xylE-dT (cut with XbaI and PstI)
- Transformation with 2 µL of the ligation mix
- Colony-PCR of the transformation for verification
- After overnight incubation of colony x in LB medium with ampicilin a glycerine stock was made
week 6 (18.-22.06.12)
- No work progress
week 7 (25.-29.06.12)
tphA1
tphA2
tphA3
tphB
aroY
Other
- Funktional testing of BBa_J23100-xylE-dT
- We inoculated 50 mL LB-medium-ampicilin with 10 µl of the glycerine stock BBa_J23100-xylE-dT
- After incubation we centrifuged the culture at 4600x g for 10 minutes
- We resuspended the pellet with the 1000 µL pipette in 3 mL PBS buffer and added PBS to 120 ml
- We added 2 mL of 0.5 M catechol solution to the cell suspension
- We observed a colour change colourless to light yellow
week 8 (02.-06.07.12)
tphA1
tphA2
tphA3
tphB
aroY
Other
week 9 (09.-13.07.12)
tphA1
tphA2
tphA3
tphB
aroY
Other
week 10 (16.-20.07.12)
tphA1
tphA2
tphA3
tphB
aroY
Other
week 11 (23.-27.07.12)
tphA1
tphA2
tphA3
tphB
aroY
Other
week 12 (30.07.-03.08.12)
tphA1
tphA2
tphA3
tphB
aroY
Other
week 13 (06.-10.08.12)
tphA1
tphA2
tphA3
tphB
aroY
Other
week 14 (13.-17.08.12)
tphA1
tphA2
tphA3
tphB
aroY
Other
week 15 (20.-24.08.12)
tphA1
tphA2
tphA3
tphB
aroY
Other
week 16 (27.-31.08.12)
tphA1
tphA2
tphA3
tphB
aroY
Other
week 17 (03.-07.09.12)
tphA1
tphA2
tphA3
tphB
aroY
Other
week 18 (10.-17.09.12)
tphA1
tphA2
tphA3
tphB
aroY
Other
week 19 (17.-21.09.12)
tphA1
tphA2
tphA3
tphB
aroY
Other
