September

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Sep. 10th 2008

CMV PCR (Sabine)
-PCR with primer for the CMV promotor; as DNA template the CMV+RLuc construct from the Ljubljana group (isolated from the parts collection 2007) was used.

For a 50 µl reaction:
40,4 µl H2O
5 µl buffer (10x)
1,5 µl FWD Primer (15pmol)(
1,5 µl REV Primer (15pmol)
1 µl dNTP (10mM)
0,1 µl DNA template
0,5 µl Pfu Polymerase

The settings for the PCR machine are the following:
1. T=94°C 00:02:00
2. T=94°C 00:00:30
3. T=62°C 00:00:30
4. T=72°C 00:01:00
5. GOTO 2 REP 29
6. T=72°C 00:10:00
7. HOLD 6°C

No product was received.

Sep. 11th 2008

Sep. 12th 2008

1) Origami with NIP and fluorophor for the binding measurement (Norman+Simone)

We had to produce some new origami for our next binding measurements.

• Origami with NIP and fluorophor

• Origami only with fluorophor (without NIP); negative control

see at the protocol from 07-24-2008

2) Origami for the Calciummeasurement (Norman+Simone)

• Origami with NIP

• Origami without NIP (negative control)

see at the protocol from 07-24-2008

To increase the concentration of origami we also made to probes with the double amount

ingredients of the protocol from 07.24.2008

3) Master cycler (Norman+Simone)

The origamis were produced in the mastercycler as explained before.

4) Purification of the DNA Origami (Norman+Simone)

Was done as before

5) Digestion of CMV+Rluc (Sabine) Digestion with EcoRV und FspI (3h at 37°C)

• 5µl plasmid
• 10µl H2O
• 0,5µl enzyme
• 2,5µl buffer (2)
• 0,5µl BSA

File:Verdau CMVRluc EcoRV FspI klein.jpg

6) CMV PCR (Sabine)
-the same PCR with different annealing temperatures using a gradient between 58°C and 62°C (optimal annealing temperature: 62°C)
-again, no products were gained

7) preparation of the 293T cells for a Mg2+ and TAE-tolerancetest (MTT-assay) Normann

• scraping cells off the dish and centrifuging them at 1300rpm (5min)
• discarding the supernatant and washing the cells in 10ml PBS
• spinning down again at 1300rpm (5min), discarding the supernatant and solving the cells in 10ml fresh medium (DMEM)
• giving 500µl of the cellsuspension to each well of a 6 well plate and adding Medium and 125mM MgAc

Sep. 15th 2008

CMV-PCR (Sabine)
-another effort to gain the CMV-Promotor via PCR, this time with different polymerases: Taq Polymerase and a Mix.
-one approach with the complete plasmid and one with the digested plasmid (see digestion of CMV+Rluc)
-products in the approach with taq polymerase as well as in the approach with the Mix. 3 bands from each approach were cut out

Sep. 16th 2008

Gel purification (Sabine)
-gel purification of the PCR products

Digestion of the PCR products and the transfectionvector (Sabine, Kathrin)
-digestion with EcoRI and PstI
-ligation

Sep. 18th 2008

Transformation (Sabine)
-transformation with the ligation product.

Sep. 19th 2008

Transformation (Sabine)
-no colonies on the plates.

Sep. 20th 2008

Digestion of the PCR products and the transfection-vector (Sabine)
-the restriction-enzymes XbaI and SpeI were used

Gel purification and ligation (Sabine)
-digestion of PCR products and vector

Sep. 21st 2008

Transformation of the ligation (Sabine)
-RV 308 cells were transformed with 10 µl of the ligation

Sep. 23rd 2008

1. Transformation of the 4 plasmids of ATG (michael)
-> Signalpeptide
-> Transmembrane domain
-> His-tag
-> Strep-tag

2. Digestion...

Sep. 24th 2008

1. Transformation (michael)
of the Ligations: CMV-Promotor + Vector
proportion: PCR-product (CMV promoter) / vector
-> 6/2
-> 4/4

2. Picking clons of the '4 ATG trafos' (michael)
-> Signalpeptide
-> Transmembrane domain
-> His-tag
-> Strep-tag
after growing glycerinstocks and Miniprep of all 4

3. Picking clons from stock (michael) -> lipocalin
-> C-GFP and N-GFP
-> C-CFP and N-CFP
-> scFv anti NIP

4. Digestion of the CMV-promoter
Approach Mix: 3/4.1/4.2/4.3/4.4

...

Sep. 25th 2008

Miniprep (normann)
of C-CFP and scFv-anti-NIP

Picking from stocks (normann):
N-CFP, N-GFP, C-CFP, C-GFP

Defrost B12-cells (michael)
and put in new RPMI:
->500ml RPMI
+50ml FCS(10%)
+5ml Hepes(1M)
+5ml L-glutamine(200mM)
+5ml Pen-Strep
+1,75µl ß-Mercaptoethanol(14.3M)

Ligation 2nd try (sabine)
with T4-ligase:
Insert: CMV-Promotor, old and new PCR-Product
Vector: Transfection-Vector fermented with EcoRI/SpeI
-Approaches (for each, old and new PCR-Product): Insert/Vector -> a) 6/2, b) 4/4

Sep. 26th 2008

Transformation of the 'ligation 2nd try' (michael)

Picking clones
4x Signalpeptide
2x Transmembraneregion

Miniprep of: (norman)
-Lipocalin
-Venus split N-GFP
-Venus split C-GFP
-Cerulan split N-CFP

Sep. 30th 2008

Maesurement of calcium influx
(Simone) Cell staining
1)wash cells in medium (RPMI) with 1% FCS
2)count the cells and then resuspend the cells in RPMI with 1%FCS -> concentration 10^6 – 5x 10^6 cells/ml!
3)Mix:
25µl Indo-1 (5µg/ml)
25µl Pluronic F127 (0,5µg/ml)
113µl FCS
-> mix it very well and incubate it for 5minutes
4)Add 15µl of the mixture/ml of cells -> incubate it in the dark for 45minutes at 37°C, shake it every 15minutes
5)Add 5-10ml medium (use the same medium as the one which will be used for the measurement) and centrifuge it at 1200rpm for 5minutes
6)Take supernatant out. And resuspend the cells to 2-5x10^6 cells/ml

Measurement on the FACS
Ca2+ response was induced by addition of the indicated stimulus 1 min after starting to record the ratio of Ca2+-bound Indo-1 versus unbound Indo-1 with a LSRII fluorescence spectrometer (Becton Dickinson). Data were analyzed with the FloJo 6.1 software.
For the measurement: prewarm 50ml of the medium for the measurement up to 37°C, to make sure that you have the optimal conditions for the cells.

Results