October

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Latest revision as of 02:40, 30 October 2008

_october

Oct. 1st 2008

Digestion transfectionvector and CMV PCR product(3rd try)(Kathrin)
Digestion with EcoRI and PstI

Ligation transfectionvector and CMV PCR product(3rd try) (Kathrin)
Using new T4 DNA ligase and new ligase buffer

Miniprep of pBSK-signalpeptide (Sabine)

Transformation of pMA-transmembrane, pMA-Histag, pMA-signalpeptide, pMA-splitlinker, pMA-StreptagII (Sabine)

Oct. 2nd 2008

Picking clones (Kathrin)
pMA-transmembrane, pMA-Histag, pMA-signalpeptide, pMA-splitlinker, pMA-StreptagII

Digestion of: (Kathrin)
pBSK-signalpeptide with AgeI and PstI
pMA-Lipocalin and pMA-Anti-Nip-scFv with NgoMIV and PstI

Ligation (Kathrin)
Using Quick DNA ligase
Vector: pBSK-signalpeptide
Insert: Lipocalin, Anti-NIP-scFv
-Approaches: Insert/Vector -> a) 6/2, b) 4/4

Transformation (Kathrin)
of the ligation transfectionvector+CMV PCR product(3rd try)

Miniprep of: (Sabine)
pMA-transmembrane, pMA-Histag, pMA-signalpeptide, pMA-splitlinker, pMA-StreptagII

Preparative digestion of: (Sabine)
- pMA-splitlinker with AgeI and SpeI
- pMA-Cerulan split C-CFP and pMA-Venus split C-YFP with NgoMIV and SpeI

Ligation (Sabine)
Vector: pMA-splitlinker
Insert: Cerulan split C-CFP, Venus split C-YFP

Transformation (Sabine)
of the ligation pBSK-signalpeptide+Lipocalin and pBSK-signalpeptide+Anti-NIP-scFv

Oct. 3rd 2008

Transformation (Michael)
of the ligation pMA-splitlinker+Cerulan split C-CFP and pMA-splitlinker+Venus split C-YFP

Picking clones (Michael)
-transfectionvector-CMV PCR product
-pBSK-signalpeptide-Lipocalin
-pBSK-signalpeptide-Anti-NIP-scFv

Miniprep and analytic digestion of (Kathrin)
-transfectionvector-CMV PCR product
-pBSK-signalpeptide-Lipocalin
-pBSK-signalpeptide-Anti-NIP-scFv

Preparative digestion of (Kathrin)
-transfectionvector-CMV PCR product with SpeI and PstI
-pBSK-signalpeptide-Lipocalin and pBSK-signalpeptide-Anti-NIP-scFv with XbaI and PstI

Ligation (Sabine)
Vector: transfectionvector-CMV PCR product
Insert: signalpeptide-Lipocalin, signalpeptide-Anti-NIP-scFv

Oct. 4th 2008

Transformation (Normann)
-the ligation transfectionvector-CMV PCR product+signalpeptide-Lipocalin
-the ligation transfectionvector-CMV PCR product+signalpeptide-Anti-NIP-scFv
-pGA18-bla1(ß-Lactamase 1)
-pGA18-bla2(ß-Lactamase 2)
-pGA14-YFP

Picking clones (Sabine)
-pMA-splitlinker-Cerulan split C-CFP
-pMA-splitlinker-Venus split C-YFP

Oct. 5th 2008

Miniprep of: (Michael)
-pMA-splitlinker-Cerulan split C-CFP
-pMA-splitlinker-Venus split C-YFP
-pGA18-bla1
-pGA18-bla2
-pGA14-YFP

Picking clones (Sabine)
-transfectionvector-CMV PCR product-signalpeptide-Lipocalin
-transfectionvector-CMV PCR product-signalpeptide-Anti-NIP-scFv

Analytic digestion of: (Sabine)
-pMA-splitlinker-Cerulan split C-CFP -> expected bands: pMA-Vector ~ 2360bp, splitlinker-cCFP ~ 370bp
-pMA-splitlinker-Venus split C-YFP -> expected bands: pMA-Vector ~ 2360bp, splitlinker-cYFP ~ 370bp

Lane01: GeneRuler 1kb DNA ladder (fermentas)
Lane02: pMA-splitlinker-Cerulan split C-CFP clone 1 (correct)
Lane03: pMA-splitlinker-Cerulan split C-CFP clone 2 (not correct)
Lane04: pMA-splitlinker-Cerulan split C-CFP clone 3 (correct)
Lane05: pMA-splitlinker-Cerulan split C-CFP clone 4 (correct)
Lane06: ---
Lane07: pMA-splitlinker-Venus split C-YFP clone 1 (correct)
Lane08: pMA-splitlinker-Venus split C-YFP clone 2 (not correct)
Lane09: pMA-splitlinker-Venus split C-YFP clone 3 (not correct)
Lane10: pMA-splitlinker-Venus split C-YFP clone 4 (correct)

Preparative digestion (Sabine)
-pGA14-YFP

Ligation (Sabine)
Using T4 DNA ligase
Vector: transfectionvector-CMV PCR product
Insert: YFP

Oct. 6th 2008

DNA-Origamis normann
DNA-Origamis with Alexa/noNIP, NIP/Alexa, NIP, noNIP were made. The protocol of july 24th was used.

Preparation of 293T transfection normann

In order to transfect the 293T-cells with CMV+YFP tomorrow, the amount of cells per ml was determined with the "Neubauer cell chamber" --> 2,62*10E6 cells/ml
To transfect cells with 1µg DNA in a 6-well plate, you need ~6*10E4 cells per well, so 20µl of the suspension was given in each well and 2ml DMEM was added.

Transformation of the ligation (Sabine)
transfectionvector-CMV PCR product+YFP

Preparative digestion of (Sabine)
-pMA-transmembrane with AgeI and SpeI
-pMA-Cerulan N-CFP and pMA-Venus N-YFP and NgoMIV and SpeI

Preparative digestion of (Kathrin)
-pMA-splitlinker-Cerulan split C-CFP
-pMA-splitlinker-Venus split C-YFP

Detection of linkage between Fab and NIP(Normann)

Fig: Oriogamis with (left) and without NIP given to B-cells in 50% TA-buffer(12,5mM Mg2+) and 50% Ringer (12,5mM Mg2+)

Fig: Origami without (left) and with (right) NIP given to B-cells in TA-buffer (12,5mM Mg2+)
Origamis seem to be absorbed by the cells. A specific linkage was not apparent.Sole TA buffer is osmotically disadvantageous for the cells. Analytic digestion of (Kathrin)
-transfectionvector-CMV PCR product-signalpeptide-Lipocalin -> no correct clones
-transfectionvector-CMV PCR product-signalpeptide-Anti-NIP-scFv -> no correct clones
Ligation (Michael)
Using Quick ligase
Vector: pMA-transmembrane
Insert: splitlinker-Cerulan split C-CFP, splitlinker-Venus split C-YFP, Cerulan N-CFP and Venus N-YFP

Transformation of the ligation (Michael)
-pMA-transmembrane+splitlinker-Cerulan split C-CFP
-pMA-transmembrane+splitlinker-Venus split C-YFP
-pMA-transmembrane+Cerulan N-CFP
-pMA-transmembrane+Venus N-YFP

Picking clones (Michael)
-transfectionvector-CMV PCR product-YFP

Oct. 7th 2008

Miniprep and analytic digestion (Kathrin)
- transfectionvector-CMV PCR product-YFP clones 1-4
- transfectionvector-CMV PCR product-Lipocalin clones 5-7

test digestion of the clones named above with NotI
analysis on the agarosegel shows not the expected bands

Transfection of 293t with tv-cmv-yfp
was done in a 6well plate

Miniprep and analytic digestion (Sabine)
1) pMA-transmembrane-Cerulan N-CFP -> expected bands: pMA-Vector ~ 2360bp, transmembrane-Cerulan N-CFP ~ 610bp
2) pMA-transmembrane-Venus N-YFP -> expected bands: pMA-Vector ~ 2360bp, transmembrane-Venus N-YFP ~ 610bp
3) pMA-transmembrane-splitlinker-Cerulan split C-CFP -> expected bands: pMA-Vector ~ 2360bp, transmembrane-splitlinker-Cerulan split C-CFP ~ 430bp

Lane01: GeneRuler 1kb DNA ladder (fermentas)
Lane02: pMA-transmembrane-Cerulan N-CFP clone 1 (correct)
Lane03: pMA-transmembrane-Cerulan N-CFP clone 2 (correct)
Lane04: pMA-transmembrane-Cerulan N-CFP clone 3 (correct)
Lane05: pMA-transmembrane-Venus N-YFP clone 1 (correct)
Lane06: pMA-transmembrane-Venus N-YFP clone 2 (correct)
Lane07: pMA-transmembrane-Venus N-YFP clone 3 (correct)
Lane08: pMA-transmembrane-splitlinker-Cerulan split C-CFP clone 1 (correct)
Lane09: pMA-transmembrane-splitlinker-Cerulan split C-CFP clone 2 (correct)
Lane10: pMA-transmembrane-splitlinker-Cerulan split C-CFP clone 3 (correct)

4) pMA-transmembrane-splitlinker-Venus split C-YFP -> expected bands: pMA-Vector ~ 2360bp, transmembrane-splitlinker-Venus split C-YFP ~ 430bp

Lane01: GeneRuler 1kb DNA ladder (fermentas)
Lane02: pMA-transmembrane-splitlinker-Venus split C-YFP clone 1 (correct)
Lane03: pMA-transmembrane-splitlinker-Venus split C-YFP clone 2 (correct)
Lane04: pMA-transmembrane-splitlinker-Venus split C-YFP clone 3 (correct)

Oct. 8th 2008

Digestion of CFP normann
In order to put the gene for CFP behind the CMV-promotor on our transfectionvector to make a double trasnsfektion with YFP, the plasmit carrying CFP was digested using pst1 and Xba1.
The digested gene was brought on an agarosegel and the expected band was cut out, after the followed the extraction out of the gel using the "QIAquick gel extraction kit"

preparation of ss Phage DNA normann
Because the ss PhageDNA ,which is needed for the origamis, is nearly empty phages were harvested out of a overnight culture.
Harvesting happened like it is descriped under Methods.
Preparation of the ssDNA was done following the QIAPrep Spin M13 Kits protocol.

Klenow-fill-in-reaction (Kathrin)
For producing a GGGS-Linker

Preparative digestion (Sabine)
-pMA-transmembrane with AgeI and SpeI
-pMA-BB058(Split luciferase), pGA18-bla1, pGA18-bla2 with NgoMIV and SpeI

Ligation (Sabine)
Using Quick ligase
Vector: pMA-transmembrane
Insert: BB058(Split luciferase), bla1 and bla2

Transformation (Sabine)
of the ligations
-pMA-transmembrane+BB058(Split luciferase)
-pMA-transmembrane+bla1
-pMA-transmembrane+bla2

Miniprep (Sabine)
-transfectionvector-CMV PCR product clones 5-9

Oct. 9th 2008

Analytic digestion (with NotI) (Kathrin)
-transfectionvector-CMV PCR product clones 5-9 -> correct clones

Preparative digestion (Kathrin)
-transfectionvector-CMV PCR product clone 5 with SpeI and PstI
-pBSK-signalpeptide-Lipocalin and pBSK-signalpeptide-Anti-Nip-sc-Fv with XbaI and PstI

Sequencing (Kathrin)
Correct:
-pMA-transmembrane-Cerulan-N-CFP clone 2
-pMA-transmembrane-Venus-N-YFP clone 3
-pMA-transmembrane-splitlinker-Cerulan-C-CFP clone 2
-pMA-transmembrane-splitlinker-Venus-C-YFP clone 3
Not correct:
-pBSK-signalpeptide-Lipocalin clone 1
-pBSK-signalpeptide-Anti-NIP-sc-Fv clone 4

Analytic Digestion (Sabine)
-pMA-signalpeptide-Anti-Nip-sc-Fv -> expected bands: pMA-Vector ~2360bp, signalpeptide-Anti-Nip-sc-Fv ~880bp
-pMA-signalpeptide-Lipocalin -> expected bands: pMA-Vector ~2360bp, signalpeptide-Lipocalin ~670bp

Lane01: GeneRuler 1kb DNA ladder (fermentas)
Lane02: pMA-signalpeptide-Anti-Nip-sc-Fv clone 1 (correct)
Lane03: pMA-signalpeptide-Anti-Nip-sc-Fv clone 2 (correct)
Lane04: pMA-signalpeptide-Anti-Nip-sc-Fv clone 3 (correct)
Lane05: pMA-signalpeptide-Lipocalin clone 1 (correct)
Lane06: pMA-signalpeptide-Lipocalin clone 2 (correct)
Lane07: pMA-signalpeptide-Lipocalin clone 3 (correct)

Preparative Digestion (Sabine)
-pMA-BB057(Splitluciferase) with NgoMIV and SpeI
-GGGS-Linker with NgoMIV and PstI
-pMA-signalpeptide-Anti-Nip-sc-Fv clone 2 with AgeI and PstI
-pMA-signalpeptide-Lipocalin clone3 with AgeI and PstI

Ligation (Sabine)
Using T4 DNA Ligase
Vector: pMA-signalpeptide-Anti-Nip-sc-Fv, pMA-signalpeptide-Lipocalin, pMA-transmembrane
Insert: GGGS-Linker, BB057

Oct. 10th 2008

Sequencing (Kathrin)
Correct:
-pMA-signalpeptide-Anti-Nip-sc-Fv clone 2
-pMA-signalpeptide-Lipocalin clone3

Transformation (Kathrin)
of the ligations
-pMA-signalpeptide-Anti-Nip-sc-Fv+GGGS-Linker
-pMA-signalpeptide-Lipocalin+GGGS-Linker
-pMA-transmembrane+BB057

Preparative Digestion (Sabine)
-pMA-transmembrane with AgeI and PstI
-BB057, BB058, bla1 and bla2 with NgoMIV and PstI

Picking clones (Sabine)
3 clones from pMA-signalpeptide-Lipocalin-GGGS-Linker
1 clone from pMA-signalpeptide-Anti-Nip-sc-Fv+GGGS-Linker

Oct. 11th 2008

Ligation of CFP/YFP and Transfectionvektor+CMV
Ligation was done using the quick ligase. Inkubation for 40min.

Transformation of TV-CMV-YFP and TV-CMV-CFP

Miniprep and analytic digestion(with NotI) (Sabine)
pMA-signalpeptide-Lipocalin-GGGS-Linker clones 1-3

Ligation (Sabine)
using the Quick ligation kit
Vector: pMA-transmembrane
Insert: BB057, BB058, bla1 and bla2

Preparative Digestion (Sabine)
-pMA-signalpeptide-Lipocalin-GGGS-Linker with AgeI and PstI
-pMA-transmembrane-Cerulan-N-CFP with NgoMIV and PstI
-pMA-transmembrane-Venus-N-YFP with NgoMIV and PstI
-pMA-transmembrane-splitlinker-Cerulan-C-CFP with NgoMIV and PstI
-pMA-transmembrane-splitlinker-Venus-C-YFP with NgoMIV and PstI
-> analysis on the agarosegel showed not the expected bands

Transformation (Michael)
of the ligations
pMA-transmembrane+BB057, pMA-transmembrane+BB058, pMA-transmembrane+bla1, pMA-transmembrane+bla2

Miniprep (Michael)
pMA-signalpeptide-Anti-Nip-sc-Fv+GGGS-Linker

Oct. 12th 2008

Miniprep (Michael)
pMA-transmembrane-Cerulan-N-CFP clone 2, pMA-transmembrane-Venus-N-YFP clone 3, pMA-transmembrane-splitlinker-Cerulan-C-CFP clone 2, pMA-transmembrane-splitlinker-Venus-C-YFP clone 3

Analytic Digestion (Kathrin)
With NotI
-pMA-signalpeptide-Anti-Nip-sc-Fv -> expected bands: pMA-Vector ~ 2360bp, pMA-signalpeptide-Anti-Nip-sc-Fv ~ 880bp
-pMA-signalpeptide-Anti-Nip-sc-Fv-GGGS-Linker -> expected bands: pMA-Vector ~ 2360bp, pMA-signalpeptide-Anti-Nip-sc-Fv-GGGSlinker ~ 920bp
-pMA-signalpeptide-Lipocalin -> expected bands: pMA-Vector ~ 2360bp, pMA-signalpeptide-Lipocalin ~ 670bp
-pMA-signalpeptide-Lipocalin-GGGS-Linker (2nd try) -> expected bands: pMA-Vector ~ 2360bp, pMA-signalpeptide-Lipocalin-GGGSlinker ~ 710bp
This time pMA-signalpeptide-Lipocalin was also digested to see the different sizes of the constructs with and without GGGS-Linker on the gel

Lane01: GeneRuler 1kb DNA ladder (fermentas)
Lane02: pMA-signalpeptide-Anti-Nip-sc-Fv clone 1(correct)
Lane03: pMA-signalpeptide-Anti-Nip-sc-Fv+GGGS-Linker clone 1 (not correct)
Lane04: pMA-signalpeptide-Lipocalin clone 1(correct)
Lane05: pMA-signalpeptide-Lipocalin-GGGS-Linker clone 1 (correct)
Lane06: pMA-signalpeptide-Lipocalin-GGGS-Linker clone 2 (correct)
Lane07: pMA-signalpeptide-Lipocalin-GGGS-Linker clone 3 (correct)

Preparative Digestion (Kathrin)
-pMA-transmembrane-Cerulan-N-CFP clone 2, pMA-transmembrane-Venus-N-YFP clone 3, pMA-transmembrane-splitlinker-Cerulan-C-CFP clone 2 and pMA-transmembrane-splitlinker-Venus-C-YFP clone 3 with NgoMIV and PstI
-pMA-signalpeptide-Lipocalin-GGGS-Linker clone 3 with AgeI and PstI
-> not correct digested
-transfectionvector-CMV PCR product clone 5 with SpeI and PstI
- YFP clone 3, CFP clone 1 with XbaI and PstI

Ligation (Kathrin)
Using the Quick ligation kit
Vector: transfectionvector-CMV PCR product clone 5
Insert: YFP clone 3, CFP clone 1

Transformation (Sabine)
of the ligation transfectionvector-CMV PCR product clone 5+YFP clone 3 and transfectionvector-CMV PCR product clone 5+CFP clone 1

Oct. 13th 2008

Transfection of 293t with tv-cmv-yfp (Normann)
done in a 6 well plate. No counted seeding this time due to too little cells in the last try.
Transformation (Kathrin)
repeat: transfectionvector-CMV PCR product clone 5+YFP clone 3 and +CFP clone 1

Miniprep (Kathrin)
- pMA-transmembraneregion-Splitlinker-C-Venus-YFP clone 3
- pMA-transmembraneregion-N-Venus-YFP clone 3
- pMA-transmembraneregion-Splitlinker-C-Cerulean-CFP clone 2
- pMA-transmembraneregion-N-Cerulean-CFP clone 2

Preparative Digestion (Kathrin)
for the final construct: pMA_Signalpeptide_scFv-anti-NIP_GGGS-Linker
digestion with AgeI and PstI: pMA_Signalpeptide_scFv-anti-NIP
digestion with NgoMIV and PstI: GGGS-linker (produced by fill in reaction)

for the final construct: pMA_Signalpeptide-Lipocalin_GGGS_N-CFP/ _N-YFP/ Splitlinker_C-CFP/ Splitlinker_C-YFP
digestion with AgeI and PstI: pMA_Signalpeptide-Lipocalin_GGGS-Linker clone 1
digestion with NgoMIV and PstI: pMA_transmembraneregion_N-CFP/ _N-YFP/ Splitlinker_C-CFP/ Splitlinker_C-YFP

Analytic Digestion (Kathrin)
the following constructs were tested: Transfecionvektor_CMV_clone5_YFP A, B, C, D
after gel-seperation the expected bands were detected (3400bp=vector + 1400bp=CMV+YFP)
clone D was chosen for a transfection of 293T-cells

20ml culture of Transfecionvektor_CMV_clone5_YFP D to get enough DNA for the transfection

Preparative Digestion (Michael)
for the final construct: pMA_transmembraneregion_Luciferase1/ _Luciferase2/ -ß-Lactamase1 /- ß-Lactamase2
vector-digestion with AgeI and PstI: pMA_transmembraneregion_clone3
insert-digestion with NgoMIV and PstI: pMA_BB058 (Luciferase1), pMA_BB057 (Luciferase2), pMA_bla1 (ß-Lactamase1), pMA_bla2 (ß-Lactamase2)

Ligation (Kathrin)
for the final constructs:
- pMA_Signalpeptide_scFv-anti-NIP_GGGS-Linker
- pMA_Signalpeptide-Lipocalin_GGGS_N-CFP
- pMA_Signalpeptide-Lipocalin_GGGS_N-YFP
- pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-CFP
- pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-YFP

Picking clones (Kathrin)
transfectionvector_CMV_PCR-product_clone5_YFP E, F, G, H
transfectionvector_CMV_PCR-product_clone5_CFP 1, 2, 3, 4

Ligation (Michael)
for the final constructs:
- pMA_transmembraneregion_Luciferase 1
- pMA_transmembraneregion_Luciferase 2
- pMA_transmembraneregion_ß-Lactamase1
- pMA_transmembraneregion_ß-Lactamase2

Transformation (Michael)
of all ligations mentioned above

Miniprep (Sabine)
pMA_BB057, _BB058, _transmembraneregion_clone3, _bla1, _bla2

Oct. 14th 2008

!!! New Coding for all parts !!!

cause of to long descriptions

1. complete parts in pMA-vector

NIP A: pMA-BBFR_signalpeptide_scFv-anti-NIP_GGGS-Linker_egfR-transmembraneregion_N-ß-lactamase
NIP B: pMA-BBFR_signalpeptide_scFv-anti-NIP_GGGS-Linker_egfR-transmembraneregion_C-ß-lactamase
NIP C: pMA-BBFR_signalpeptide_scFv-anti-NIP_GGGS-Linker_egfR-transmembraneregion_SPLIT-Linker-C-YFP
NIP D: pMA-BBFR_signalpeptide_scFv-anti-NIP_GGGS-Linker_egfR-transmembraneregion_N-YFP
NIP E: pMA-BBFR_signalpeptide_scFv-anti-NIP_GGGS-Linker_egfR-transmembraneregion_SPLIT-Linker-C-cFP
NIP F: pMA-BBFR_signalpeptide_scFv-anti-NIP_GGGS-Linker_egfR-transmembraneregion_N-CFP
NIP G: pMA-BBFR_signalpeptide_scFv-anti-NIP_GGGS-Linker_egfR-transmembraneregion_BB058 (luciferase)
NIP H: pMA-BBFR_signalpeptide_scFv-anti-NIP_GGGS-Linker_egfR-transmembraneregion_BB057 (luciferase)

Lipo A: pMA-BBFR_signalpeptide_lipocalin_GGGS-Linker_egfR-transmembraneregion_N-ß-lactamase
Lipo B: pMA-BBFR_signalpeptide_lipocalin_GGGS-Linker_egfR-transmembraneregion_C-ß-lactamase
Lipo C: pMA-BBFR_signalpeptide_lipocalin_GGGS-Linker_egfR-transmembraneregion_SPLIT-Linker-C-YFP
Lipo D: pMA-BBFR_signalpeptide_lipocalin_GGGS-Linker_egfR-transmembraneregion_N-YFP
Lipo E: pMA-BBFR_signalpeptide_lipocalin_GGGS-Linker_egfR-transmembraneregion_SPLIT-Linker-C-cFP
Lipo F: pMA-BBFR_signalpeptide_lipocalin_GGGS-Linker_egfR-transmembraneregion_N-CFP
Lipo G: pMA-BBFR_signalpeptide_lipocalin_GGGS-Linker_egfR-transmembraneregion_BB058 (luciferase)
Lipo H: pMA-BBFR_signalpeptide_lipocalin_GGGS-Linker_egfR-transmembraneregion_BB057 (luciferase)

2. complete parts in transfection-vector

NIP I: BBa-J52017+CMV_signalpeptide_scFv-anti-NIP_GGGS-Linker_egfR-transmembraneregion_N-ß-lactamase
NIP II: BBa-J52017+CMV_signalpeptide_scFv-anti-NIP_GGGS-Linker_egfR-transmembraneregion_C-ß-lactamase
NIP III: BBa-J52017+CMV_signalpeptide_scFv-anti-NIP_GGGS-Linker_egfR-transmembraneregion_SPLIT-Linker-C-YFP
NIP IV: BBa-J52017+CMV_signalpeptide_scFv-anti-NIP_GGGS-Linker_egfR-transmembraneregion_N-YFP
NIP V: BBa-J52017+CMV_signalpeptide_scFv-anti-NIP_GGGS-Linker_egfR-transmembraneregion_SPLIT-Linker-C-cFP
NIP VI: BBa-J52017+CMV_signalpeptide_scFv-anti-NIP_GGGS-Linker_egfR-transmembraneregion_N-CFP
NIP VII: BBa-J52017+CMV_signalpeptide_scFv-anti-NIP_GGGS-Linker_egfR-transmembraneregion_BB058 (luciferase)
NIP VIII: BBa-J52017+CMV_signalpeptide_scFv-anti-NIP_GGGS-Linker_egfR-transmembraneregion_BB057 (luciferase)

Lipo I: BBa-J52017+CMV_signalpeptide_lipocalin_GGGS-Linker_egfR-transmembraneregion_N-ß-lactamase
Lipo II: BBa-J52017+CMV_signalpeptide_lipocalin_GGGS-Linker_egfR-transmembraneregion_C-ß-lactamase
Lipo III: BBa-J52017+CMV_signalpeptide_lipocalin_GGGS-Linker_egfR-transmembraneregion_SPLIT-Linker-C-YFP
Lipo IV: BBa-J52017+CMV_signalpeptide_lipocalin_GGGS-Linker_egfR-transmembraneregion_N-YFP
Lipo V: BBa-J52017+CMV_signalpeptide_lipocalin_GGGS-Linker_egfR-transmembraneregion_SPLIT-Linker-C-cFP
Lipo VI: BBa-J52017+CMV_signalpeptide_lipocalin_GGGS-Linker_egfR-transmembraneregion_N-CFP
Lipo VII: BBa-J52017+CMV_signalpeptide_lipocalin_GGGS-Linker_egfR-transmembraneregion_BB058 (luciferase)
Lipo VIII: BBa-J52017+CMV_signalpeptide_lipocalin_GGGS-Linker_egfR-transmembraneregion_BB057 (luciferase)

Transfection (Normann)
To test the functionality of the TV+CMV construct, a testtransfection with the construct+YFP in 293t-cells was done.

Miniprep (Kathrin)
- 16ml TV_CMV_clone5_YFP clone D for transfection of 293T cells
- 4ml TV_CMV_clone5_CFP clone 1, 2, 3, 4
- 4ml TV_CMV_clone5_YFP clone E, F, G, H
of the 4ml cultures also glycerinstockes were taken

Analytic Digestion (Kathrin)
- TV_CMV_clone5_CFP clone 1, 2, 3, 4
- TV_CMV_clone5_YFP clone E, F, G, H
expected bands were detected (3400bp=vector + 1400bp=CMV+YFP/ CMV+CFP)

Sequencing (Kathrin)
Correct:
- pMA_Signalpeptide_Lipocalin_GGGS-linker_clone 1
- pMA_Signalpeptide_Lipocalin_GGGS-linker_clone 2
Not correct
- TV_CMV_clone5_YFP clone A (base exchange in the CMV-promotor)

Picking clones (Michael)
- pMA_transmembraneregion_Luciferase 1
- pMA_transmembraneregion_Luciferase 2
- pMA_transmembraneregion_ß-Lactamase1
- pMA_transmembraneregion_ß-Lactamase2
- pMA_Signalpeptide_scFv-anti-NIP_GGGS-Linker
- pMA_Signalpeptide-Lipocalin_GGGS_N-CFP (Lipo F)
- pMA_Signalpeptide-Lipocalin_GGGS_N-YFP (Lipo D)
- pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-CFP (Lipo E)
- pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-YFP (Lipo C)

Oct. 15th 2008

Miniprep and analytic digestion (Kathrin)
- pMA_transmembraneregion_ß-Lactamase1 -> expected bands: pMA-Vector ~2360bp, transmembraneregion_ß-Lactamase1 ~670bp
- pMA_transmembraneregion_ß-Lactamase2 -> expected bands: pMA-Vector ~2360bp, transmembraneregion_ß-Lactamase2 ~380bp
- pMA_transmembraneregion_Luciferase 1 -> expected bands: pMA-Vector ~2360bp, transmembraneregion_Luciferase 1 ~ 350bp
- pMA_transmembraneregion_Luciferase 2 -> expected bands: pMA-Vector ~2360bp, transmembraneregion_Luciferase 2 ~ 310bp
- pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-YFP (Lipo C) -> expected bands: pMA-Vector ~2360bp, Signalpeptide-Lipocalin_GGGS_Splitlinker_C-YFP (Lipo C) ~ 1150bp

Lane01: GeneRuler 1kb DNA ladder (fermentas)
Lane02: pMA_transmembraneregion_ß-Lactamase1 clone 1 (correct)
Lane03: pMA_transmembraneregion_ß-Lactamase1 clone 2 (correct)
Lane04: pMA_transmembraneregion_ß-Lactamase2 clone 1 (correct)
Lane05: pMA_transmembraneregion_ß-Lactamase2 clone 2 (correct)
Lane06: pMA_transmembraneregion_Luciferase 1 clone 1 (correct)
Lane07: pMA_transmembraneregion_Luciferase 1 clone 2 (correct)
Lane08: pMA_transmembraneregion_Luciferase 2 clone 1 (correct)
Lane09: pMA_transmembraneregion_Luciferase 2 clone 2 (correct)
Lane10: pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-YFP (Lipo C) clone 1 (correct)
Lane11: pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-YFP (Lipo C) clone 2 (correct)

- pMA_Signalpeptide-Lipocalin_GGGS_N-YFP (Lipo D) -> expected bands: pMA-Vector ~2360bp, Insert Lipo D ~ 1320bp
- pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-CFP (Lipo E) -> expected bands: pMA-Vector ~2360bp, Insert Lipo E ~ 1140bp
- pMA_Signalpeptide-Lipocalin_GGGS_N-CFP (Lipo F) -> expected bands: pMA-Vector ~2360bp, Insert Lipo F ~ 1320bp
- pMA_Signalpeptide-scFv-anti-NIP_GGGS-Linker -> expected bands: pMA-Vector ~ 2360bp, Signalpeptide-scFv-anti-NIP_GGGS-Linker ~ 920bp
- pMA-signalpeptide-scFv-anti-NIP -> expected bands: pMA-Vector ~ 2360bp, signalpeptide-Anti-Nip-sc-Fv ~ 880bp

Lane01: pMA_Signalpeptide-Lipocalin_GGGS_N-YFP (Lipo D) clone 1 (correct)
Lane02: pMA_Signalpeptide-Lipocalin_GGGS_N-YFP (Lipo D) clone 2 (correct) (correct)
Lane03: pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-CFP (Lipo E) clone 1 (correct)
Lane04: pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-CFP (Lipo E) clone 2 (correct)
Lane05: pMA_Signalpeptide-Lipocalin_GGGS_N-CFP (Lipo F) clone 1 (correct)
Lane06: pMA_Signalpeptide-Lipocalin_GGGS_N-CFP (Lipo F) clone 2 (correct)
Lane07: pMA_Signalpeptide-scFv-anti-NIP_GGGS-Linker clone 1 (correct)
Lane08: pMA_Signalpeptide-scFv-anti-NIP_GGGS-Linker clone 2 (correct)
Lane09: pMA_Signalpeptide-scFv-anti-NIP_GGGS-Linker clone 3 (correct)
Lane10: pMA-signalpeptide-scFv-anti-NIP (correct)
Lane11: GeneRuler 1kb DNA ladder (fermentas)

fluorescence microscopy (Normann and Kathrin)
To test if the CMV-promotor in the transfectionvector allows a succesful transfection of a protein TV_CMV_5_YFP clone D was transfected to 293T cells and analysed by fluorescence microscopy.

Figure_fluorescence microscopy from left to right: 293T cells transfected with the Transfectionvektor+CMV-promotor and a YFP construct/ control/ brightfield picture of the control
As expected the transfectionvector with CMV promotor induces expression of the yellow fluorescent protein.

Preparative Digestion (Sabine)
for the final constructs: pMA_signalpeptide_scFv-antiNIP_GGGS-linker_transmembraneregion_bla1/ _bla2/ _Luciferase-BB058/ _Luciferase-BB057
digestion with AgeI and PstI: pMA_signalpeptide_scFv-antiNIP_GGGS-linker_
digestion with NgoMIV and PstI:pMA_transmembraneregion_bla1/ _bla2/ _Luciferase-BB058/ _Luciferase-BB057

Sequencing (Kathrin)
Correct:
- TV_CMV_clone 7
- TV_CMV_clone 8
Not correct
- TV_CMV_clone 5 (base exchange in the CMV promotor)
- TV_CMV_clone 9 (base exchange in the CMV promotor)
- TV_CMV_clone5_YFP A (base exchange in the CMV promotor)
- TV_CMV_clone5_CFP 1 (base exchange in the CMV promotor)

Ligation (Michael)
Using Quick ligase
Vector: pMA-signalpeptide-scFV-antiNIP-GGGSlinker
Insert: transmembrane-bla1, transmembrane-bla2, transmembrane-splitlinker-C-CFP, transmembrane-splitlinker-C-YFP, transmemrbane-N-CFP, transmembrane-N-YFP, transmembrane-Splitluciferase(BB058), transmembrane-Splitluciferase(BB057)
Vector: pMA-signalpeptide-Lipocalin-GGGSlinker
Insert: transmembrane-bla1, transmembrane-bla2, transmembrane-Splitluciferase(BB058), transmembrane-Splitluciferase(BB057)

Transformation (Michael)
of the ligations mentioned above

Oct. 16th 2008

Preparative Digestion (Sabine)
of Lipo C,D,E and F (always clone 1) with XbaI and PstI
to bring into the transfection-vector TV/CMV clone 7, digested with SpeI and PstI

Ligation (Michael)
of the digested vector and inserts (see above) with Quick ligase

Transformation (Michael)
of Lipo III, IV, V and VI in XL-1 cells

Oct. 17th 2008

Miniprep (Sabine)
of NIP A,B and Lipo A,B,G,H (both times clone 1 and 2)

Analytic and Preparative Digestion (Sabine)
the analytic one with NotI, the preparative one with XbaI and PstI
- Lipo A -> expected bands: pMA-Vector ~2360bp, Insert Lipo A ~ 1380bp
- Lipo B -> expected bands: pMA-Vector ~2360bp, Insert Lipo B ~ 1090bp
- Lipo G -> expected bands: pMA-Vector ~2360bp, Insert Lipo G ~ 1020bp
- Lipo H -> expected bands: pMA-Vector ~2360bp, Insert Lipo H ~ 1060bp
- NIP A -> expected bands: pMA-Vector ~2360bp, Insert NIP A ~ 1590bp
- NIP B -> expected bands: pMA-Vector ~2360bp, Insert NIP B ~ 1300bp

Lane01: GeneRuler 1kb DNA ladder (fermentas)
Lane02: Lipo A clone 1(correct)
Lane03: Lipo B clone 1 (correct)
Lane04: Lipo G clone 1 (correct)
Lane05: Lipo H clone 1 (correct)
Lane06: NIP A clone 1 (correct)
Lane07: NIP B clone 1 (correct)

Miniprep (Michael)
of NIP C,D,E,F,G and H (each with clone 1 and 2)

Analytic Digestion (Michael)
with NotI
- NIP C -> expected bands: pMA-Vector ~2360bp, Insert NIP C ~ 1360bp
- NIP D -> expected bands: pMA-Vector ~2360bp, Insert NIP D ~ 1530bp
- NIP E -> expected bands: pMA-Vector ~2360bp, Insert NIP E ~ 1360bp
- NIP F -> expected bands: pMA-Vector ~2360bp, Insert NIP F ~ 1530bp
- NIP G -> expected bands: pMA-Vector ~2360bp, Insert NIP G ~ 1230bp
- NIP H -> expected bands: pMA-Vector ~2360bp, Insert NIP H ~ 1280bp

Lane01: NIP C clone 1 (correct)
Lane02: NIP D clone 1 (correct)
Lane03: NIP E clone 1 (correct)
Lane04: NIP F clone 1 (correct)
Lane05: NIP G clone 1 (correct)
Lane06: NIP H clone 1 (correct)
Lane07: GeneRuler 1kb DNA ladder (fermentas)

Preparative Digestion (Michael)
of NIP C,D,E,F,G,H with XbaI and PstI

Picking clones (Sabine)
Lipo III, IV, V and VI

Ligation (Sabine)
Inserts: NIP C, D, E, F, G, H (clone 1)
Vector: TV/CMV (clon 7)
with ligase T4

Miniprep (Sabine)
of Lipo III, IV, V and VI

Oct. 18th 2008

Miniprep and analytic digestion (Sabine)
- Lipo III -> expected bands: transfectionvector ~4100bp, Insert Lipo III (=Lipo C+CMV) ~ 1800bp
- Lipo IV -> expected bands: transfectionvector ~4100bp, Insert Lipo IV (=Lipo D+CMV) ~ 1970bp
- Lipo V -> expected bands: transfectionvector ~4100bp, Insert Lipo V (=Lipo E+CMV) ~ 1800bp
- Lipo VI -> expected bands: transfectionvector ~4100bp, Insert Lipo VI (=Lipo F+CMV) ~ 1970bp

Lane01: GeneRuler 1kb DNA ladder (fermentas)
Lane02: Lipo III clone 1 (correct)
Lane03: Lipo III clone 2 (correct)
Lane04: Lipo IV clone 1 (correct)
Lane05: Lipo IV clone 2 (correct)
Lane06: Lipo V clone 1 (not correct)
Lane07: Lipo V clone 2 (correct)
Lane08: Lipo VI clone 1 (correct))
Lane09: Lipo VI clone 2 (correct)

Ligation (Sabine)
Using Quick ligase
Vector: transfection-vector TV/CMV clone 7
Insert: CFP clone 1, YFP clone 3

Preparative digestion (Sabine)
-pMA-transmembrane with AgeI and PstI
-YFP clone 3 with NgoMIV and PstI

Transformation (Sabine)
of the quick ligations
-transfection-vector TV/CMV clone 7 + CFP clone 1
-transfection-vector TV/CMV clone 7 + YFP clone 3
of the ligations with T4 ligase (Oct. 17th 2008)
-transfection-vector TV/CMV clone 7 + NIP C, D, E, F, G, H
of the part BCR-transmembrane ordered by geneart

Picking clones (Sabine)
Lipo I, II, VII, VIII and NIP I, II

Ligation and transformation (Michael)
Using Quick ligase
Vector: pMA-transmembrane
Insert: YFP

Oct. 19th 2008

Miniprep and analytic digestion (Sabine)
- Lipo I -> expected bands: transfectionvector ~4100bp, Insert Lipo I (=Lipo A+CMV) ~ 2030bp
- Lipo II -> expected bands: transfectionvector ~4100bp, Insert Lipo II (=Lipo B+CMV) ~ 1730bp
- Lipo VII -> expected bands: transfectionvector ~4100bp, Insert Lipo VII (=Lipo G+CMV) ~ 1670bp
- Lipo VIII -> expected bands: transfectionvector ~4100bp, Insert Lipo VIII (=Lipo H+CMV) ~ 1710bp

Lane01: GeneRuler 1kb DNA ladder (fermentas)
Lane02: Lipo I clone 1 (correct)
Lane03: Lipo I clone 2 (correct)
Lane04: Lipo II clone 1 (correct)
Lane05: Lipo II clone 2 (correct)
Lane06: Lipo VII clone 1 (not correct)
Lane07: Lipo VII clone 2 (correct)
Lane08: Lipo VIII clone 1 (correct))
Lane09: Lipo VIII clone 2 (correct)

- NIP I -> expected bands: transfectionvector ~4100bp, Insert NIP I (=NIP A+CMV) ~ 2240bp
- NIP II -> expected bands: transfectionvector ~4100bp, Insert NIP II (=NIP B+CMV) ~ 1950bp

Lane01: GeneRuler 1kb DNA ladder (fermentas)
Lane02: NIP I clone 1 (not correct)
Lane03: NIP I clone 2 (correct)
Lane04: NIP II clone 1 (correct)
Lane05: NIP II clone 2 (correct)

Picking clones
TV/CMV-CFP, TV/CMV-YFP, NIP III, IV, V, VI, VII, VIII, pMA-transmembrane-YFP

Oct. 20th 2008

Miniprep and analytic digestion (Michael)
-TV/CMV-CFP
-TV/CMV-YFP
-pMA-transmembrane-YFP
-NIP III -> expected bands: transfectionvector ~4100bp, Insert NIP III (=NIP C+CMV) ~ 2010bp
-NIP IV -> expected bands: transfectionvector ~4100bp, Insert NIP IV (=NIP D+CMV) ~ 2180bp
-NIP V -> expected bands: transfectionvector ~4100bp, Insert NIP V (=NIP E+CMV) ~ 2010bp
-NIP VI -> expected bands: transfectionvector ~4100bp, Insert NIP VI (=NIP F+CMV) ~ 2180bp
-NIP VII -> expected bands: transfectionvector ~4100bp, Insert NIP VII (=NIP G+CMV) ~ 1880bp

Lane01: GeneRuler 1kb DNA ladder (fermentas)
Lane02: NIP III clone 1 (correct)
Lane03: NIP III clone 2 (correct)
Lane04: NIP IV clone 1 (not correct)
Lane05: NIP IV clone 2 (correct)
Lane06: NIP VI clone 1 (correct)
Lane07: NIP VI clone 2 (not correct)
Lane08: NIP VII clone 1 (correct))
Lane09: NIP VII clone 2 (correct)

-NIP VIII -> expected bands: transfectionvector ~4100bp, Insert NIP VIII (=NIP H+CMV) ~ 1920bp

Lane01: GeneRuler 1kb DNA ladder (fermentas)
Lane02: NIP VIII clone 1 (correct)
Lane03: NIP VIII clone 2 (correct)

Oct. 21th 2008

Sequencing (Kathrin)
Correct:
-pMA-signalpeptide-scFV-Anti-NIP-GGGSlinker clone 1 and clone 2
-pMA-transmembrane-BB058(Luciferase) clone 1
-pMA-transmembrane-BB057(Luciferase) clone 1
-NIP A, B, E, F, and G
-Lipo A, B, C, D, E, F, G and H
Not correct(base exchanges):
-NIP C, D and H (clones 1)

5ml cultures (Kathrin)
of the sequenced parts

Phage DNA Isolation (Normann)
50ml culture of ER2738 cells

Seeding 293T cells for transfection (Normann)

20ml cultures for transfection (Kathrin)
cultures of the parts using for transfection (NipI-NipVIII, TV/CMV-CFP, TV/CMV-YFP)

Oct. 22th 2008

Preparative Digestion (Kathrin)
-YFP, CFP, transmembrane-YFP clone 1 and 2, pMA-transmembrane, NIP I and Lipo I

Gelextraction of the digested constructs(Normann)
using QIAquick gel extraction kit

Miniprep (Kathrin)
-of the 5ml cultures of the sequenced parts
-of the 20ml cultures of the parts needed for transfection

Phage DNA Isolation (Normann)
Dilution of the 50ml culture to an OD of approximately 0,1

Doubletransfection of 293t-cells(Normann)
done with TV-CMV-CFP + TV-CMV-YFP, the two parts of the anti NIP-splitbla-receptor system and the two parts of the anti NIP splitluc- receptor system.

Ligation (Kathrin)
-Vector: pMA-transmembrane, Insert: YFP, CFP
-Vector: pMA-signalpeptide-scFV-Anti-NIP-GGGS, Insert: transmembrane-YFP, transmembrane-CFP
-Vector: pMA-signalpeptide-Lipocalin-GGGS, Insert: transmembrane-YFP, transmembrane-CFP
-Vector: Lipo I, Insert: YFP, CFP
-Vector: NIP I, Insert: YFP, CFP
Phage DNA Isolation (Normann)
Inoculate ER2738 cells with M13 phages -> shaking for approximately 4h at 37°C

After that, spinning down 50 ml at 5000g 20min and adding 7ml PEG/NaCl and storing at 4°C. Incubation over night.

Oct. 23th 2008

Detecting the new origami at the AFM (Normann)

Sequencing (Kathrin)
Correct:
-TV/CMV-CFP clone 1
-NIP C, D and H clones 2

>Doubletransfection of 293t-cells(Normann)
done with TV-CMV-CFP + TV-CMV-YFP, the two parts of the anti NIP-splitbla-receptor system, the two parts of the anti NIP splitluc- receptor system and the two parts of the anti NIP split GFP receptor system.

Preparative Digestion (Kathrin)
NIP C, D and H (clones 2)
Ligation (Kathrin)
Using Quick ligase
Vector: TV/CMV
Insert: NIP C, D and H (clones 2)

Transformation (Michael
of the ligations (see above)
5ml cultures (Kathrin)
-NIP C, D and H (clones 2)
-pMA-signalpeptide-NIP-GGGS clone 1 and 2
-pMA-transmembrane-betaLactamase1 clone 1
-pMA-transmembrane-betaLactamase2 clone 1
-pMA-transmembrane-BB058(Splitluciferase) clone 1
-pMA-transmembrane-BB057(Splitluciferase) clone 1

Miniprep (Sabine)
-NIP C, D and H (clones 2)
-pMA-signalpeptide-NIP-GGGS clone 1 and 2
-pMA-transmembrane-betaLactamase1 clone 1
-pMA-transmembrane-betaLactamase2 clone 1
-pMA-transmembrane-BB058(Splitluciferase) clone 1
-pMA-transmembrane-BB057(Splitluciferase) clone 1

Ligation(2nd try) (Simone) Using Quick ligase
Vector: TV/CMV
Insert: NIP C, D and H (clones 2)

Transformation (Sabine)
of the ligations (see above)

Oct. 24th 2008

Analytic digestion (Sabine)
- NIP I+YFP-> expected bands: transfectionvector ~4100bp, Insert NIP I+YFP(=NIP A+CMV+YFP) ~ 2940bp
- NIP I+CFP-> expected bands: transfectionvector ~4100bp, Insert NIP I+CFP(=NIP A+CMV+CFP) ~ 2940bp
- Lipo I+YFP -> expected bands: transfectionvector ~4100bp, Insert Lipo I+YFP (=Lipo A+CMV+YFP) ~ 2730bp
- Lipo I+CFP -> expected bands: transfectionvector ~4100bp, Insert Lipo I+CFP (=Lipo A+CMV+CFP) ~ 2730bp

Lane01: GeneRuler 1kb DNA ladder (fermentas)
Lane02: NIP I+YFP clone 1 (correct)
Lane03: NIP I+YFP clone 2 (correct)
Lane04: NIP I+YFP clone 3 (correct)
Lane05: NIP I+CFP clone 1 (correct)
Lane06: NIP I+CFP clone 2 (correct)
Lane07: ---
Lane08: Lipo I+YFP clone 1 (correct)
Lane09: Lipo I+YFP clone 2 (correct)
Lane10: Lipo I+CFP clone 1 (correct)

staining cells with LiveBLAzer from invitrogen(Normann,Michael)
The cells which should have expressed both parts of the anti NIP bla receptor system were stained with LiveBLAzer, using the protocol of the invitrogen LiveBLAzer Kit.

Preparative digestion (Sabine)
-pMA-Signalpeptide-scFV-Anti-NIP-transmembrane-YFP
-pMA-Signalpeptide-Lipocalin-transmembrane-YFP

Miniprep (Kathrin)
-pMA-transmembrane-YFP and pMA-transmembrane-CFP
-NIP I-YFP, NIP I-CFP, Lipo I-YFP, Lipo I-CFP

Preparative digestion (Kathrin)
pMA-transmembrane-YFP and pMA-transmembrane-CFP with NgoMIV and PstI

Ligation and transformation (Sabine)
Using Quick ligase
-Vector: pMA-signalpeptide-scFv-Anti-NIP-GGGS, Insert: transmembrane-YFP, transmembrane-CFP
-Vector: TV/CMV Insert: scFv-Anti-NIP-transmembrane-YFP

Oct. 25th 2008

Miniprep and analytic digestion (Sabine)
NIP III, NIP IV and NIP VIII
-> NIP IV showed not the expected bands -> new clones were picked (clones 4-7)

Ligation and transformation(2nd try) (Sabine)
Using Quick ligase
-Vector: pMA-signalpeptide-scFv-Anti-NIP-GGGS, Insert: transmembrane-YFP, transmembrane-CFP
-Vector: TV/CMV Insert: scFv-Anti-NIP-transmembrane-YFP

Seeding 293T cells for transfection (Sabine)

Oct. 26th 2008

Miniprep and analytic digestion (Kathrin)
-NIP IV (clones 4-7)
-pMA-signalpeptide-scFv-anti-NIP-GGGS-transmembrane-CFP

Preparative digestion (Kathrin)
-pMA-signalpeptide-scFV-anti-NIP-transmembrane-CFP with XbaI and PstI
-TV/CMV with SpeI and PstI

Picking clones (Kathrin)
-pMA-signalpeptide-scFv-Anti-NIP-transmembrane-YFP, pMA-signalpeptide-scFv-Anti-NIP-transmembrane-CFP
-transfectionvector-Lipocalin-transmembrane-YFP, transfectionvector-scFV-Anti_NIP-transmembrane-YFP

Ligation (Sabine)
-Vector: TV/CMV, Insert: NIP D clone 2 (2nd try, since the analytic digestion of several clones showed not the expected bands)
-Vector: TV/CMV, Insert: scFV-Anti-NIP-GGGS-transmembrane-CFP, scFV-Anti-NIP-GGGS-transmembrane-YFP

Transformation (Michael)
of the ligations (see above)

Transfection of 293T cells (Sabine)
For transfection 2µg DNA (4µg DNA for double transfection) was used
1) Double transfection with NIP I and NIP II
2) Double transfection with NIP III and NIP IV
3) Double transfection with NIP V and NIP VI
4) Double transfection with NIP VII and NIP VIII
5) NIP I-YFP
6) NIP I-CFP
7) Lipo I-YFP
8) Lipo I-CFP
9) TV/CMV-YFP 1
10)TV/CMV-CFP
11)TV/CMV-YFP A
12)Negative control

Oct. 27th 2008

fluorescence microscopy (Michael, Sabine, Kathrin)
analysis of the transfected cells 1)-12) via fluorescence microscopy.
1) no result
2) no result
3) no result
4) no result
5) no result
6) no result
7) as expected
8) as expected
9) as expected
10) as expected
11) as expected
12) as expected

Analysis of the split beta Lactamase was performed by LiveBLAzer (invitrogen). After loading the cells with CCF4-AM the molecule is converted into CCF4 by an esterase in the cell. Beta Lactamase splits the FRET-pair CCF4 (absoption 409, emission 520nm) into two fragments. One of the fragments can still be stimulated by 409nm to detect an emission at 447nm)

Figure_fluorescence microscopy 1 brightfield and UV-light picture with YFP-filter. The 293T cells are transfected with the construct: Transfectionsvector+CMV_SP_Lipocalin_GGGS-linker_transmembraneregion_beta-Lactamase-fragment1_YFP.

Figure_fluorescence microscopy 2 brightfield and UV-light picture with YFP- and CFP-filter. The 293T cells are transfected with the constructs: upper:Transfectionsvector+CMV_YFP lower:Transfectionsvector+CMV_CFP

The pictures show cleary the difference between soluble YFP/CFP Figure_fluorescence microscopy 2 and the membranelocalised YFP fused to the synthetic receptor construct Figure_fluorescence microscopy 1 "transfectionsvector+CMV_SP_Lipocalin_GGGS-linker_transmembraneregion_beta-Lactamase-fragment1_YFP". The principle to localise our synthetic fusion-receptor-proteins to cell membrane is proved.

@@ Line 2: / Line 2: @@
 Content=
 <div style="font-size:18pt;">
-<font face="Arial Rounded MT Bold" style="color:#010369">__october</font></div>
+<font face="Arial Rounded MT Bold" style="color:#010369">_october</font></div>
 <br>
 <br>
@@ Line 40: / Line 40: @@
 '''Preparative digestion of:''' (Sabine)<br>
 - pMA-splitlinker with AgeI and SpeI<br>
-- pMA-Cerulan split C-CFP and pMA-Venus split C-GFP with NgoMIV and SpeI<br>
+- pMA-Cerulan split C-CFP and pMA-Venus split C-YFP with NgoMIV and SpeI<br>
 <br>
 '''Ligation''' (Sabine)<br>
 Vector: pMA-splitlinker<br>
-Insert: Cerulan split C-CFP, Venus split C-GFP<br>
+Insert: Cerulan split C-CFP, Venus split C-YFP<br>
 <br>
 '''Transformation''' (Sabine)<br>
@@ Line 50: / Line 50: @@
 <h3>Oct. 3rd 2008</h3><br>
 '''Transformation''' (Michael)<br>
-of the ligation pMA-splitlinker+Cerulan split C-CFP and pMA-splitlinker+Venus split C-GFP<br>
+of the ligation pMA-splitlinker+Cerulan split C-CFP and pMA-splitlinker+Venus split C-YFP<br>
 <br>
 '''Picking clones''' (Michael)<br>
@@ Line 81: / Line 81: @@
 '''Picking clones''' (Sabine)<br>
 -pMA-splitlinker-Cerulan split C-CFP<br>
--pMA-splitlinker-Venus split C-GFP<br>
+-pMA-splitlinker-Venus split C-YFP<br>
 <br>
 <h3>Oct. 5th 2008</h3><br>
@@ Line 87: / Line 87: @@
 '''Miniprep of:''' (Michael)<br>
 -pMA-splitlinker-Cerulan split C-CFP<br>
--pMA-splitlinker-Venus split C-GFP<br>
+-pMA-splitlinker-Venus split C-YFP<br>
 -pGA18-bla1<br>
 -pGA18-bla2<br>
@@ Line 97: / Line 97: @@
 <br>
 '''Analytic digestion of:''' (Sabine)<br>
--pMA-splitlinker-Cerulan split C-CFP -> 3 correct clones<br>
+-pMA-splitlinker-Cerulan split C-CFP -> expected bands: pMA-Vector ~ 2360bp, splitlinker-cCFP ~ 370bp<br>
--pMA-splitlinker-Venus split C-GFP -> 2 correct clones<br>
+-pMA-splitlinker-Venus split C-YFP -> expected bands: pMA-Vector ~ 2360bp, splitlinker-cYFP ~ 370bp<br>
+[[Image:TeamFreiburg2008_Linker+cCFP_1005.jpg|250px]]<br>
+Lane01: GeneRuler 1kb DNA ladder (fermentas)<br>
+Lane02: pMA-splitlinker-Cerulan split C-CFP clone 1 (correct)<br>
+Lane03: pMA-splitlinker-Cerulan split C-CFP clone 2 (not correct)<br>
+Lane04: pMA-splitlinker-Cerulan split C-CFP clone 3 (correct)<br>
+Lane05: pMA-splitlinker-Cerulan split C-CFP clone 4 (correct)<br>
+Lane06: ---<br>
+Lane07: pMA-splitlinker-Venus split C-YFP clone 1 (correct)<br>
+Lane08: pMA-splitlinker-Venus split C-YFP clone 2 (not correct)<br>
+Lane09: pMA-splitlinker-Venus split C-YFP clone 3 (not correct)<br>
+Lane10: pMA-splitlinker-Venus split C-YFP clone 4 (correct)<br>
 <br>
 '''Preparative digestion''' (Sabine)<br>
@@ Line 123: / Line 134: @@
 '''Preparative digestion of''' (Sabine)<br>
 -pMA-transmembrane with AgeI and SpeI<br>
--pMA-Cerulan N-CFP and pMA-Venus N-GFP and NgoMIV and SpeI<br>
+-pMA-Cerulan N-CFP and pMA-Venus N-YFP and NgoMIV and SpeI<br>
 <br>
 '''Preparative digestion of''' (Kathrin)<br>
 -pMA-splitlinker-Cerulan split C-CFP<br>
--pMA-splitlinker-Venus split C-GFP<br>
+-pMA-splitlinker-Venus split C-YFP<br>
-<br>
+<br><br>'''Detection of linkage between Fab and NIP'''(Normann)<br>
+[[Image:Freiburg08Ta50Ringer50_kont+nip.jpg‎]]<br>
+''Fig: Oriogamis with (left) and without NIP given to B-cells in 50% TA-buffer(12,5mM Mg2+) and 50% Ringer (12,5mM Mg2+) ''<br><br>[[Image:Freiburg08NipnoNipinTa.jpg‎]]<br>
+''Fig: Origami without (left) and with (right) NIP given to B-cells in TA-buffer (12,5mM Mg2+)''<br> Origamis seem to be absorbed by the cells. A specific linkage was not apparent.Sole TA buffer is osmotically disadvantageous for the cells.
 '''Analytic digestion of''' (Kathrin)<br>
 -transfectionvector-CMV PCR product-signalpeptide-Lipocalin -> no correct clones<br>
@@ Line 135: / Line 149: @@
 Using Quick ligase<br>
 Vector: pMA-transmembrane<br>
-Insert: splitlinker-Cerulan split C-CFP, splitlinker-Venus split C-GFP, Cerulan N-CFP and Venus N-GFP<br>
+Insert: splitlinker-Cerulan split C-CFP, splitlinker-Venus split C-YFP, Cerulan N-CFP and Venus N-YFP<br>
 <br>
 '''Transformation of the ligation''' (Michael)<br>
 -pMA-transmembrane+splitlinker-Cerulan split C-CFP<br>
--pMA-transmembrane+splitlinker-Venus split C-GFP<br>
+-pMA-transmembrane+splitlinker-Venus split C-YFP<br>
 -pMA-transmembrane+Cerulan N-CFP<br>
--pMA-transmembrane+Venus N-GFP<br>
+-pMA-transmembrane+Venus N-YFP<br>
 <br>
 '''Picking clones''' (Michael)<br>
@@ Line 151: / Line 165: @@
 - transfectionvector-CMV PCR product-YFP clones 1-4<br>
 - transfectionvector-CMV PCR product-Lipocalin clones 5-7<br>
-<br>
 test digestion of the clones named above with NotI<br>
 analysis on the agarosegel shows not the expected bands
+<br><br>
+'''Transfection of 293t with tv-cmv-yfp'''<br>
+was done in a 6well plate <br>
+<br>
+'''Miniprep and analytic digestion''' (Sabine)<br>
+) pMA-transmembrane-Cerulan N-CFP -> expected bands: pMA-Vector ~ 2360bp, transmembrane-Cerulan N-CFP ~ 610bp<br>
+) pMA-transmembrane-Venus N-YFP -> expected bands: pMA-Vector ~ 2360bp, transmembrane-Venus N-YFP ~ 610bp<br>
+) pMA-transmembrane-splitlinker-Cerulan split C-CFP -> expected bands: pMA-Vector ~ 2360bp, transmembrane-splitlinker-Cerulan split C-CFP ~ 430bp<br>
+[[Image:TeamFreiburg2008_TM+NCFP_NYFP_Li-cCFP_Li-cYFP_1007.jpg|250px]]<br>
+Lane01: GeneRuler 1kb DNA ladder (fermentas)<br>
+Lane02: pMA-transmembrane-Cerulan N-CFP clone 1 (correct)<br>
+Lane03: pMA-transmembrane-Cerulan N-CFP clone 2 (correct)<br>
+Lane04: pMA-transmembrane-Cerulan N-CFP clone 3 (correct)<br>
+Lane05: pMA-transmembrane-Venus N-YFP clone 1 (correct)<br>
+Lane06: pMA-transmembrane-Venus N-YFP clone 2 (correct)<br>
+Lane07: pMA-transmembrane-Venus N-YFP clone 3 (correct)<br>
+Lane08: pMA-transmembrane-splitlinker-Cerulan split C-CFP clone 1 (correct)<br>
+Lane09: pMA-transmembrane-splitlinker-Cerulan split C-CFP clone 2 (correct)<br>
+Lane10: pMA-transmembrane-splitlinker-Cerulan split C-CFP clone 3 (correct)<br>
+<br>
+) pMA-transmembrane-splitlinker-Venus split C-YFP -> expected bands: pMA-Vector ~ 2360bp, transmembrane-splitlinker-Venus split C-YFP ~ 430bp<br>
+[[Image:TeamFreiburg2008_TM+NCFP_NYFP_Li-cCFP_Li-cYFP2_1007.jpg|100px]]<br>
+Lane01: GeneRuler 1kb DNA ladder (fermentas)<br>
+Lane02: pMA-transmembrane-splitlinker-Venus split C-YFP clone 1 (correct)<br>
+Lane03: pMA-transmembrane-splitlinker-Venus split C-YFP clone 2 (correct)<br>
+Lane04: pMA-transmembrane-splitlinker-Venus split C-YFP clone 3 (correct)<br>
+<br>
 <h3>Oct. 8th 2008</h3> <br>
 '''Digestion of CFP''' normann<br>
-In order to put the gene for CFP behind the CMV-promotor on our transfectionvector to make a double trasnsfektion with YFP, the plasmit carrieng CFP was digested using pst1 and Xba1. <br>
+In order to put the gene for CFP behind the CMV-promotor on our transfectionvector to make a double trasnsfektion with YFP, the plasmit carrying CFP was digested using pst1 and Xba1. <br>
 The digested gene was brought on an agarosegel and the expected band was cut out, after the followed the extraction out of the gel using the "QIAquick gel extraction kit"<br>
 <br>
@@ Line 197: / Line 237: @@
 Correct:<br>
 -pMA-transmembrane-Cerulan-N-CFP clone 2<br>
--pMA-transmembrane-Venus-N-GFP clone 3<br>
+-pMA-transmembrane-Venus-N-YFP clone 3<br>
 -pMA-transmembrane-splitlinker-Cerulan-C-CFP clone 2<br>
--pMA-transmembrane-splitlinker-Venus-C-GFP clone 3<br>
+-pMA-transmembrane-splitlinker-Venus-C-YFP clone 3<br>
 Not correct:<br>
 -pBSK-signalpeptide-Lipocalin clone 1<br>
@@ Line 205: / Line 245: @@
 <br>
 '''Analytic Digestion''' (Sabine)<br>
--pMA-signalpeptide-Anti-Nip-sc-Fv clones 1-3<br>
+-pMA-signalpeptide-Anti-Nip-sc-Fv -> expected bands: pMA-Vector ~2360bp, signalpeptide-Anti-Nip-sc-Fv ~880bp <br>
--pMA-signalpeptide-Lipocalin clones 1-3<br>
+-pMA-signalpeptide-Lipocalin -> expected bands: pMA-Vector ~2360bp, signalpeptide-Lipocalin ~670bp<br>
+[[Image:TeamFreiburg2008_pMA-SP+NIP+Lipo_1009.jpg|200px]]<br>
+Lane01: GeneRuler 1kb DNA ladder (fermentas)<br>
+Lane02: pMA-signalpeptide-Anti-Nip-sc-Fv clone 1 (correct)<br>
+Lane03: pMA-signalpeptide-Anti-Nip-sc-Fv clone 2 (correct)<br>
+Lane04: pMA-signalpeptide-Anti-Nip-sc-Fv clone 3 (correct)<br>
+Lane05: pMA-signalpeptide-Lipocalin clone 1 (correct)<br>
+Lane06: pMA-signalpeptide-Lipocalin clone 2 (correct)<br>
+Lane07: pMA-signalpeptide-Lipocalin clone 3 (correct)<br>
 <br>
 '''Preparative Digestion''' (Sabine)<br>
@@ Line 256: / Line 304: @@
 -pMA-signalpeptide-Lipocalin-GGGS-Linker with AgeI and PstI<br>
 -pMA-transmembrane-Cerulan-N-CFP with NgoMIV and PstI<br>
--pMA-transmembrane-Venus-N-GFP with NgoMIV and PstI<br>
+-pMA-transmembrane-Venus-N-YFP with NgoMIV and PstI<br>
 -pMA-transmembrane-splitlinker-Cerulan-C-CFP with NgoMIV and PstI<br>
--pMA-transmembrane-splitlinker-Venus-C-GFP with NgoMIV and PstI<br>
+-pMA-transmembrane-splitlinker-Venus-C-YFP with NgoMIV and PstI<br>
--> analysis on the agarosegel shows not the expected bands<br>
+-> analysis on the agarosegel showed not the expected bands<br>
 <br>
 '''Transformation''' (Michael)<br>
@@ Line 270: / Line 318: @@
 <h3>Oct. 12th 2008</h3> <br>
 '''Miniprep''' (Michael)<br>
-pMA-transmembrane-Cerulan-N-CFP clone 2, pMA-transmembrane-Venus-N-GFP clone 3, pMA-transmembrane-splitlinker-Cerulan-C-CFP clone 2, pMA-transmembrane-splitlinker-Venus-C-GFP clone 3<br>
+pMA-transmembrane-Cerulan-N-CFP clone 2, pMA-transmembrane-Venus-N-YFP clone 3, pMA-transmembrane-splitlinker-Cerulan-C-CFP clone 2, pMA-transmembrane-splitlinker-Venus-C-YFP clone 3<br>
 <br>
 '''Analytic Digestion''' (Kathrin)<br>
 With NotI<br>
--pMA-signalpeptide-Lipocalin-GGGS-Linker clones 1-3(2nd try)<br>
+-pMA-signalpeptide-Anti-Nip-sc-Fv -> expected bands: pMA-Vector ~ 2360bp, pMA-signalpeptide-Anti-Nip-sc-Fv ~ 880bp<br>
+-pMA-signalpeptide-Anti-Nip-sc-Fv-GGGS-Linker -> expected bands: pMA-Vector ~ 2360bp, pMA-signalpeptide-Anti-Nip-sc-Fv-GGGSlinker ~ 920bp<br>
+-pMA-signalpeptide-Lipocalin -> expected bands: pMA-Vector ~ 2360bp, pMA-signalpeptide-Lipocalin ~ 670bp<br>
+-pMA-signalpeptide-Lipocalin-GGGS-Linker (2nd try) -> expected bands: pMA-Vector ~ 2360bp, pMA-signalpeptide-Lipocalin-GGGSlinker ~ 710bp<br>
 This time pMA-signalpeptide-Lipocalin was also digested to see the different sizes of the constructs with and without GGGS-Linker on the gel<br>
--pMA-signalpeptide-Anti-Nip-sc-Fv+GGGS-Linker clone 1 and pMA-signalpeptide-Anti-Nip-sc-Fv<br>
+[[Image:TeamFreiburg2008_pMA-SP+NIP+GGGS_+lipo+GGGS_1011.jpg|150px]]<br>
--> pMA-signalpeptide-Anti-Nip-sc-Fv+GGGS-Linker was not correct<br>
+Lane01: GeneRuler 1kb DNA ladder (fermentas)<br>
+Lane02: pMA-signalpeptide-Anti-Nip-sc-Fv clone 1(correct)<br>
+Lane03: pMA-signalpeptide-Anti-Nip-sc-Fv+GGGS-Linker clone 1 (not correct)<br>
+Lane04: pMA-signalpeptide-Lipocalin clone 1(correct)<br>
+Lane05: pMA-signalpeptide-Lipocalin-GGGS-Linker clone 1 (correct)<br>
+Lane06: pMA-signalpeptide-Lipocalin-GGGS-Linker clone 2 (correct)<br>
+Lane07: pMA-signalpeptide-Lipocalin-GGGS-Linker clone 3 (correct)<br>
 <br>
 '''Preparative Digestion''' (Kathrin)<br>
--pMA-transmembrane-Cerulan-N-CFP clone 2, pMA-transmembrane-Venus-N-GFP clone 3, pMA-transmembrane-splitlinker-Cerulan-C-CFP clone 2 and pMA-transmembrane-splitlinker-Venus-C-GFP clone 3 with NgoMIV and PstI<br>
+-pMA-transmembrane-Cerulan-N-CFP clone 2, pMA-transmembrane-Venus-N-YFP clone 3, pMA-transmembrane-splitlinker-Cerulan-C-CFP clone 2 and pMA-transmembrane-splitlinker-Venus-C-YFP clone 3 with NgoMIV and PstI<br>
 -pMA-signalpeptide-Lipocalin-GGGS-Linker clone 3 with AgeI and PstI<br>
 -> not correct digested<br>
@@ Line 295: / Line 352: @@
 <br>
 <h3>Oct. 13th 2008</h3> <br>
+<br>
+'''Transfection of 293t with tv-cmv-yfp''' (Normann)
+<br> done in a 6 well plate. No counted seeding this time due to too little cells in the last try.<br>
 '''Transformation''' (Kathrin)<br>
 repeat: transfectionvector-CMV PCR product clone 5+YFP clone 3 and +CFP clone 1<br>
 <br>
 '''Miniprep''' (Kathrin)<br>
-- pMA-transmembraneregion-Splitlinker-C-Venus-GFP clone 3<br>
+- pMA-transmembraneregion-Splitlinker-C-Venus-YFP clone 3<br>
-- pMA-transmembraneregion-N-Venus-GFPclone 3<br>
+- pMA-transmembraneregion-N-Venus-YFP clone 3<br>
 - pMA-transmembraneregion-Splitlinker-C-Cerulean-CFP clone 2<br>
 - pMA-transmembraneregion-N-Cerulean-CFP clone 2<br>
@@ Line 309: / Line 369: @@
 digestion with NgoMIV and PstI: GGGS-linker (produced by fill in reaction)<br>
 <br>
-for the final construct: pMA_Signalpeptide-Lipocalin_GGGS_N-CFP/ _N-GFP/ Splitlinker_C-CFP/ Splitlinker_C-GFP<br>
+for the final construct: pMA_Signalpeptide-Lipocalin_GGGS_N-CFP/ _N-YFP/ Splitlinker_C-CFP/ Splitlinker_C-YFP<br>
 digestion with AgeI and PstI: pMA_Signalpeptide-Lipocalin_GGGS-Linker clone 1<br>
-digestion with NgoMIV and PstI: pMA_transmembraneregion_N-CFP/ _N-GFP/ Splitlinker_C-CFP/ Splitlinker_C-GFP<br>
+digestion with NgoMIV and PstI: pMA_transmembraneregion_N-CFP/ _N-YFP/ Splitlinker_C-CFP/ Splitlinker_C-YFP<br>
 <br>
 '''Analytic Digestion''' (Kathrin)<br>
@@ Line 329: / Line 389: @@
 - pMA_Signalpeptide_scFv-anti-NIP_GGGS-Linker<br>
 - pMA_Signalpeptide-Lipocalin_GGGS_N-CFP<br>
-- pMA_Signalpeptide-Lipocalin_GGGS_N-GFP<br>
+- pMA_Signalpeptide-Lipocalin_GGGS_N-YFP<br>
 - pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-CFP<br>
-- pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-GFP<br>
+- pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-YFP<br>
 <br>
 '''Picking clones''' (Kathrin)<br>
@@ Line 351: / Line 411: @@
 <br>
 <h3>Oct. 14th 2008</h3> <br>
+<h3>!!! New Coding for all parts !!!</h3> cause of to long descriptions<br><br>
+'''1. complete parts in pMA-vector'''<br><br>
+'''NIP A''': pMA-BBFR_signalpeptide_<u>scFv-anti-NIP</u>_GGGS-Linker_egfR-transmembraneregion_'''N-ß-lactamase'''<br>
+'''NIP B''': pMA-BBFR_signalpeptide_<u>scFv-anti-NIP</u>_GGGS-Linker_egfR-transmembraneregion_'''C-ß-lactamase'''<br>
+'''NIP C''': pMA-BBFR_signalpeptide_<u>scFv-anti-NIP</u>_GGGS-Linker_egfR-transmembraneregion_'''SPLIT-Linker-C-YFP'''<br>
+'''NIP D''': pMA-BBFR_signalpeptide_<u>scFv-anti-NIP</u>_GGGS-Linker_egfR-transmembraneregion_'''N-YFP'''<br>
+'''NIP E''': pMA-BBFR_signalpeptide_<u>scFv-anti-NIP</u>_GGGS-Linker_egfR-transmembraneregion_'''SPLIT-Linker-C-cFP'''<br>
+'''NIP F''': pMA-BBFR_signalpeptide_<u>scFv-anti-NIP</u>_GGGS-Linker_egfR-transmembraneregion_'''N-CFP'''<br>
+'''NIP G''': pMA-BBFR_signalpeptide_<u>scFv-anti-NIP</u>_GGGS-Linker_egfR-transmembraneregion_'''BB058 (luciferase)'''<br>
+'''NIP H''': pMA-BBFR_signalpeptide_<u>scFv-anti-NIP</u>_GGGS-Linker_egfR-transmembraneregion_'''BB057 (luciferase)'''<br><br>
+'''Lipo A''': pMA-BBFR_signalpeptide_<u>lipocalin</u>_GGGS-Linker_egfR-transmembraneregion_'''N-ß-lactamase'''<br>
+'''Lipo B''': pMA-BBFR_signalpeptide_<u>lipocalin</u>_GGGS-Linker_egfR-transmembraneregion_'''C-ß-lactamase'''<br>
+'''Lipo C''': pMA-BBFR_signalpeptide_<u>lipocalin</u>_GGGS-Linker_egfR-transmembraneregion_'''SPLIT-Linker-C-YFP'''<br>
+'''Lipo D''': pMA-BBFR_signalpeptide_<u>lipocalin</u>_GGGS-Linker_egfR-transmembraneregion_'''N-YFP'''<br>
+'''Lipo E''': pMA-BBFR_signalpeptide_<u>lipocalin</u>_GGGS-Linker_egfR-transmembraneregion_'''SPLIT-Linker-C-cFP'''<br>
+'''Lipo F''': pMA-BBFR_signalpeptide_<u>lipocalin</u>_GGGS-Linker_egfR-transmembraneregion_'''N-CFP'''<br>
+'''Lipo G''': pMA-BBFR_signalpeptide_<u>lipocalin</u>_GGGS-Linker_egfR-transmembraneregion_'''BB058 (luciferase)'''<br>
+'''Lipo H''': pMA-BBFR_signalpeptide_<u>lipocalin</u>_GGGS-Linker_egfR-transmembraneregion_'''BB057 (luciferase)'''<br><br>
+'''2. complete parts in transfection-vector'''<br><br>
+'''NIP I''':    BBa-J52017+CMV_signalpeptide_<u>scFv-anti-NIP</u>_GGGS-Linker_egfR-transmembraneregion_'''N-ß-lactamase'''<br>
+'''NIP II''':   BBa-J52017+CMV_signalpeptide_<u>scFv-anti-NIP</u>_GGGS-Linker_egfR-transmembraneregion_'''C-ß-lactamase'''<br>
+'''NIP III''':  BBa-J52017+CMV_signalpeptide_<u>scFv-anti-NIP</u>_GGGS-Linker_egfR-transmembraneregion_'''SPLIT-Linker-C-YFP'''<br>
+'''NIP IV''':   BBa-J52017+CMV_signalpeptide_<u>scFv-anti-NIP</u>_GGGS-Linker_egfR-transmembraneregion_'''N-YFP'''<br>
+'''NIP V''':    BBa-J52017+CMV_signalpeptide_<u>scFv-anti-NIP</u>_GGGS-Linker_egfR-transmembraneregion_'''SPLIT-Linker-C-cFP'''<br>
+'''NIP VI''':   BBa-J52017+CMV_signalpeptide_<u>scFv-anti-NIP</u>_GGGS-Linker_egfR-transmembraneregion_'''N-CFP'''<br>
+'''NIP VII''':  BBa-J52017+CMV_signalpeptide_<u>scFv-anti-NIP</u>_GGGS-Linker_egfR-transmembraneregion_'''BB058 (luciferase)'''<br>
+'''NIP VIII''': BBa-J52017+CMV_signalpeptide_<u>scFv-anti-NIP</u>_GGGS-Linker_egfR-transmembraneregion_'''BB057 (luciferase)'''<br><br>
+'''Lipo I''':    BBa-J52017+CMV_signalpeptide_<u>lipocalin</u>_GGGS-Linker_egfR-transmembraneregion_'''N-ß-lactamase'''<br>
+'''Lipo II''':   BBa-J52017+CMV_signalpeptide_<u>lipocalin</u>_GGGS-Linker_egfR-transmembraneregion_'''C-ß-lactamase'''<br>
+'''Lipo III''':  BBa-J52017+CMV_signalpeptide_<u>lipocalin</u>_GGGS-Linker_egfR-transmembraneregion_'''SPLIT-Linker-C-YFP'''<br>
+'''Lipo IV''':   BBa-J52017+CMV_signalpeptide_<u>lipocalin</u>_GGGS-Linker_egfR-transmembraneregion_'''N-YFP'''<br>
+'''Lipo V''':    BBa-J52017+CMV_signalpeptide_<u>lipocalin</u>_GGGS-Linker_egfR-transmembraneregion_'''SPLIT-Linker-C-cFP'''<br>
+'''Lipo VI''':   BBa-J52017+CMV_signalpeptide_<u>lipocalin</u>_GGGS-Linker_egfR-transmembraneregion_'''N-CFP'''<br>
+'''Lipo VII''':  BBa-J52017+CMV_signalpeptide_<u>lipocalin</u>_GGGS-Linker_egfR-transmembraneregion_'''BB058 (luciferase)'''<br>
+'''Lipo VIII''': BBa-J52017+CMV_signalpeptide_<u>lipocalin</u>_GGGS-Linker_egfR-transmembraneregion_'''BB057 (luciferase)'''<br><br>
+'''Transfection''' (Normann) <br>
+To test the functionality of the TV+CMV construct, a testtransfection with the construct+YFP in 293t-cells was done.<br><br>
 '''Miniprep''' (Kathrin)<br>
 - 16ml TV_CMV_clone5_YFP clone D for transfection of 293T cells<br>
@@ Line 376: / Line 474: @@
 - pMA_transmembraneregion_ß-Lactamase2<br>
 - pMA_Signalpeptide_scFv-anti-NIP_GGGS-Linker<br>
-- pMA_Signalpeptide-Lipocalin_GGGS_N-CFP<br>
+- pMA_Signalpeptide-Lipocalin_GGGS_N-CFP (Lipo F)<br>
-- pMA_Signalpeptide-Lipocalin_GGGS_N-GFP<br>
+- pMA_Signalpeptide-Lipocalin_GGGS_N-YFP (Lipo D)<br>
-- pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-CFP<br>
+- pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-CFP (Lipo E)<br>
-- pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-GFP<br>
+- pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-YFP (Lipo C)<br>
 <br>
 <h3>Oct. 15th 2008</h3> <br>
+<br>
+'''Miniprep and analytic digestion''' (Kathrin)<br>
+- pMA_transmembraneregion_ß-Lactamase1 -> expected bands: pMA-Vector ~2360bp, transmembraneregion_ß-Lactamase1 ~670bp <br>
+- pMA_transmembraneregion_ß-Lactamase2 -> expected bands: pMA-Vector ~2360bp, transmembraneregion_ß-Lactamase2 ~380bp<br>
+- pMA_transmembraneregion_Luciferase 1 -> expected bands: pMA-Vector ~2360bp, transmembraneregion_Luciferase 1 ~ 350bp<br>
+- pMA_transmembraneregion_Luciferase 2 -> expected bands: pMA-Vector ~2360bp, transmembraneregion_Luciferase 2 ~ 310bp<br>
+- pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-YFP (Lipo C) -> expected bands: pMA-Vector ~2360bp, Signalpeptide-Lipocalin_GGGS_Splitlinker_C-YFP (Lipo C) ~ 1150bp<br>
+[[Image:TeamFreiburg2008_TM+bla1-bla2-BB057-BB058-lipoC_1015.jpg|250px]]<br>
+Lane01: GeneRuler 1kb DNA ladder (fermentas)<br>
+Lane02: pMA_transmembraneregion_ß-Lactamase1 clone 1 (correct)<br>
+Lane03: pMA_transmembraneregion_ß-Lactamase1 clone 2 (correct)<br>
+Lane04: pMA_transmembraneregion_ß-Lactamase2 clone 1 (correct)<br>
+Lane05: pMA_transmembraneregion_ß-Lactamase2 clone 2 (correct)<br>
+Lane06: pMA_transmembraneregion_Luciferase 1 clone 1 (correct)<br>
+Lane07: pMA_transmembraneregion_Luciferase 1 clone 2 (correct)<br>
+Lane08: pMA_transmembraneregion_Luciferase 2 clone 1 (correct)<br>
+Lane09: pMA_transmembraneregion_Luciferase 2 clone 2 (correct)<br>
+Lane10: pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-YFP (Lipo C) clone 1 (correct)<br>
+Lane11: pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-YFP (Lipo C) clone 2 (correct)<br>
+<br>
+- pMA_Signalpeptide-Lipocalin_GGGS_N-YFP (Lipo D) -> expected bands: pMA-Vector ~2360bp, Insert Lipo D ~ 1320bp<br>
+- pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-CFP (Lipo E) -> expected bands: pMA-Vector ~2360bp, Insert Lipo E ~ 1140bp<br>
+- pMA_Signalpeptide-Lipocalin_GGGS_N-CFP (Lipo F) -> expected bands: pMA-Vector ~2360bp, Insert Lipo F ~ 1320bp<br>
+- pMA_Signalpeptide-scFv-anti-NIP_GGGS-Linker -> expected bands: pMA-Vector ~ 2360bp, Signalpeptide-scFv-anti-NIP_GGGS-Linker ~ 920bp<br>
+- pMA-signalpeptide-scFv-anti-NIP -> expected bands: pMA-Vector ~ 2360bp, signalpeptide-Anti-Nip-sc-Fv ~ 880bp<br>
+[[Image:TeamFreiburg2008_TM+bla1-bla2-BB057-BB058-lipoC-F_1015.jpg|200px]]<br>
+Lane01: pMA_Signalpeptide-Lipocalin_GGGS_N-YFP (Lipo D) clone 1 (correct)<br>
+Lane02: pMA_Signalpeptide-Lipocalin_GGGS_N-YFP (Lipo D) clone 2 (correct) (correct)<br>
+Lane03: pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-CFP (Lipo E) clone 1 (correct)<br>
+Lane04: pMA_Signalpeptide-Lipocalin_GGGS_Splitlinker_C-CFP (Lipo E) clone 2 (correct)<br>
+Lane05: pMA_Signalpeptide-Lipocalin_GGGS_N-CFP (Lipo F) clone 1 (correct)<br>
+Lane06: pMA_Signalpeptide-Lipocalin_GGGS_N-CFP (Lipo F) clone 2 (correct)<br>
+Lane07: pMA_Signalpeptide-scFv-anti-NIP_GGGS-Linker clone 1 (correct)<br>
+Lane08: pMA_Signalpeptide-scFv-anti-NIP_GGGS-Linker clone 2 (correct)<br>
+Lane09: pMA_Signalpeptide-scFv-anti-NIP_GGGS-Linker clone 3 (correct)<br>
+Lane10: pMA-signalpeptide-scFv-anti-NIP (correct)<br>
+Lane11: GeneRuler 1kb DNA ladder (fermentas)<br>
+<br>
+'''fluorescence microscopy''' (Normann and Kathrin) <br>
+To test if the CMV-promotor in the transfectionvector allows a succesful transfection of a protein TV_CMV_5_YFP clone D was transfected to 293T cells and analysed by fluorescence microscopy. <br>
+<br>
+[[Image:Freiburg2008_150%_293Tzvi.jpg]]  [[Image:Freiburg2008_Kontrolle.jpg]]  [[Image:Freiburg2008_Kontrolle_Durchlicht.jpg]]<br>
+'''Figure_fluorescence microscopy''' from left to right: 293T cells transfected with the Transfectionvektor+CMV-promotor and a YFP construct/ control/ brightfield picture of the control<br>
+As expected the transfectionvector with CMV promotor induces expression of the yellow fluorescent protein.<br>
+<br>
+'''Preparative Digestion''' (Sabine)<br>
+for the final constructs: pMA_signalpeptide_scFv-antiNIP_GGGS-linker_transmembraneregion_bla1/ _bla2/ _Luciferase-BB058/ _Luciferase-BB057<br>
+digestion with AgeI and PstI: pMA_signalpeptide_scFv-antiNIP_GGGS-linker_<br>
+digestion with NgoMIV and PstI:pMA_transmembraneregion_bla1/ _bla2/ _Luciferase-BB058/ _Luciferase-BB057<br>
+<br>
+'''Sequencing''' (Kathrin)<br>
+Correct:<br>
+- TV_CMV_clone 7<br>
+- TV_CMV_clone 8<br>
+Not correct<br>
+- TV_CMV_clone 5 (base exchange in the CMV promotor)<br>
+- TV_CMV_clone 9 (base exchange in the CMV promotor)<br>
+- TV_CMV_clone5_YFP A (base exchange in the CMV promotor)<br>
+- TV_CMV_clone5_CFP 1 (base exchange in the CMV promotor)<br>
+<br>
+'''Ligation''' (Michael)<br>
+Using Quick ligase<br>
+Vector: pMA-signalpeptide-scFV-antiNIP-GGGSlinker<br>
+Insert: transmembrane-bla1, transmembrane-bla2, transmembrane-splitlinker-C-CFP, transmembrane-splitlinker-C-YFP, transmemrbane-N-CFP, transmembrane-N-YFP, transmembrane-Splitluciferase(BB058), transmembrane-Splitluciferase(BB057)<br>
+Vector: pMA-signalpeptide-Lipocalin-GGGSlinker<br>
+Insert: transmembrane-bla1, transmembrane-bla2, transmembrane-Splitluciferase(BB058), transmembrane-Splitluciferase(BB057)<br>
+<br>
+'''Transformation''' (Michael)<br>
+of the ligations mentioned above<br>
+<br>
+<h3>Oct. 16th 2008</h3> <br>
+'''Preparative Digestion''' (Sabine)<br>
+of Lipo C,D,E and F (always clone 1) with XbaI and PstI<br>
+to bring into the transfection-vector TV/CMV clone 7, digested with SpeI and PstI<br><br>
+'''Ligation''' (Michael)<br>
+of the digested vector and inserts (see above) with Quick ligase<br><br>
+'''Transformation''' (Michael)<br>
+of Lipo III, IV, V and VI in XL-1 cells<br><br>
+<h3>Oct. 17th 2008</h3> <br>
+'''Miniprep''' (Sabine)<br>
+of NIP A,B and Lipo A,B,G,H (both times clone 1 and 2)<br>
+<br>
+'''Analytic and Preparative Digestion''' (Sabine)<br>
+the analytic one with NotI, the preparative one with XbaI and PstI<br>
+- Lipo A -> expected bands: pMA-Vector ~2360bp, Insert Lipo A ~ 1380bp<br>
+- Lipo B -> expected bands: pMA-Vector ~2360bp, Insert Lipo B ~ 1090bp<br>
+- Lipo G -> expected bands: pMA-Vector ~2360bp, Insert Lipo G ~ 1020bp<br>
+- Lipo H -> expected bands: pMA-Vector ~2360bp, Insert Lipo H ~ 1060bp<br>
+- NIP A -> expected bands: pMA-Vector ~2360bp, Insert NIP A ~ 1590bp<br>
+- NIP B -> expected bands: pMA-Vector ~2360bp, Insert NIP B ~ 1300bp<br>
+[[Image:TeamFreiburg2008_LipoA+B+G+H_NIPA+B_1017.jpg|150px]]<br>
+Lane01: GeneRuler 1kb DNA ladder (fermentas)<br>
+Lane02: Lipo A clone 1(correct)<br>
+Lane03: Lipo B clone 1 (correct)<br>
+Lane04: Lipo G clone 1 (correct)<br>
+Lane05: Lipo H clone 1 (correct)<br>
+Lane06: NIP A clone 1 (correct)<br>
+Lane07: NIP B clone 1 (correct)<br>
+<br>
+'''Miniprep''' (Michael)<br>
+of NIP C,D,E,F,G and H (each with clone 1 and 2)<br><br>
+'''Analytic Digestion''' (Michael)<br>
+with NotI<br>
+- NIP C -> expected bands: pMA-Vector ~2360bp, Insert NIP C ~ 1360bp<br>
+- NIP D -> expected bands: pMA-Vector ~2360bp, Insert NIP D ~ 1530bp<br>
+- NIP E -> expected bands: pMA-Vector ~2360bp, Insert NIP E ~ 1360bp<br>
+- NIP F -> expected bands: pMA-Vector ~2360bp, Insert NIP F ~ 1530bp<br>
+- NIP G -> expected bands: pMA-Vector ~2360bp, Insert NIP G ~ 1230bp<br>
+- NIP H -> expected bands: pMA-Vector ~2360bp, Insert NIP H ~ 1280bp<br>
+[[Image:TeamFreiburg2008_NIPC-H_1017.jpg|200px]]<br>
+Lane01: NIP C clone 1 (correct)<br>
+Lane02: NIP D clone 1 (correct)<br>
+Lane03: NIP E clone 1 (correct)<br>
+Lane04: NIP F clone 1 (correct)<br>
+Lane05: NIP G clone 1 (correct)<br>
+Lane06: NIP H clone 1 (correct)<br>
+Lane07: GeneRuler 1kb DNA ladder (fermentas)<br>
+<br>
+'''Preparative Digestion''' (Michael)<br>
+of NIP C,D,E,F,G,H with XbaI and PstI<br><br>
+'''Picking clones''' (Sabine)<br>
+Lipo III, IV, V and VI<br><br>
+'''Ligation''' (Sabine) <br>
+Inserts: NIP C, D, E, F, G, H (clone 1)<br>
+Vector: TV/CMV (clon 7)<br>
+with ligase T4<br><br>
+'''Miniprep''' (Sabine)<br>
+of Lipo III, IV, V and VI<br><br>
+<h3>Oct. 18th 2008</h3> <br>
+'''Miniprep and analytic digestion''' (Sabine)<br>
+- Lipo III -> expected bands: transfectionvector ~4100bp, Insert Lipo III (=Lipo C+CMV) ~ 1800bp<br>
+- Lipo IV -> expected bands: transfectionvector ~4100bp, Insert Lipo IV (=Lipo D+CMV) ~ 1970bp<br>
+- Lipo V -> expected bands: transfectionvector ~4100bp, Insert Lipo V (=Lipo E+CMV) ~ 1800bp<br>
+- Lipo VI -> expected bands: transfectionvector ~4100bp, Insert Lipo VI (=Lipo F+CMV) ~ 1970bp<br>
+[[Image:TeamFreiburg2008_Lipo3-4-5-6_1018.jpg|200px]]<br>
+Lane01: GeneRuler 1kb DNA ladder (fermentas)<br>
+Lane02: Lipo III clone 1 (correct)<br>
+Lane03: Lipo III clone 2 (correct)<br>
+Lane04: Lipo IV clone 1 (correct)<br>
+Lane05: Lipo IV clone 2 (correct)<br>
+Lane06: Lipo V clone 1 (not correct)<br>
+Lane07: Lipo V clone 2 (correct)<br>
+Lane08: Lipo VI clone 1 (correct))<br>
+Lane09: Lipo VI clone 2 (correct)<br>
+<br>
+'''Ligation''' (Sabine) <br>
+Using Quick ligase<br>
+Vector: transfection-vector TV/CMV clone 7<br>
+Insert: CFP clone 1, YFP clone 3<br>
+<br>
+'''Preparative digestion''' (Sabine) <br>
+-pMA-transmembrane with AgeI and PstI<br>
+-YFP clone 3 with NgoMIV and PstI<br>
+<br>
+'''Transformation''' (Sabine)<br>
+of the quick ligations<br>
+-transfection-vector TV/CMV clone 7 + CFP clone 1<br>
+-transfection-vector TV/CMV clone 7 + YFP clone 3<br>
+of the ligations with T4 ligase (Oct. 17th 2008)<br>
+-transfection-vector TV/CMV clone 7 + NIP C, D, E, F, G, H<br>
+of the part BCR-transmembrane ordered by geneart<br>
+<br>
+'''Picking clones''' (Sabine)<br>
+Lipo I, II, VII, VIII and NIP I, II<br>
+<br>
+'''Ligation and transformation''' (Michael)<br>
+Using Quick ligase<br>
+Vector: pMA-transmembrane<br>
+Insert: YFP<br>
+<br>
+<h3>Oct. 19th 2008</h3> <br>
+'''Miniprep and analytic digestion''' (Sabine)<br>
+- Lipo I -> expected bands: transfectionvector ~4100bp, Insert Lipo I (=Lipo A+CMV) ~ 2030bp<br>
+- Lipo II -> expected bands: transfectionvector ~4100bp, Insert Lipo II (=Lipo B+CMV) ~ 1730bp<br>
+- Lipo VII -> expected bands: transfectionvector ~4100bp, Insert Lipo VII (=Lipo G+CMV) ~ 1670bp<br>
+- Lipo VIII -> expected bands: transfectionvector ~4100bp, Insert Lipo VIII (=Lipo H+CMV) ~ 1710bp<br>
+[[Image:TeamFreiburg2008_Lipo1-2-7-8_1018.jpg|200px]]<br>
+Lane01: GeneRuler 1kb DNA ladder (fermentas)<br>
+Lane02: Lipo I clone 1 (correct)<br>
+Lane03: Lipo I clone 2 (correct)<br>
+Lane04: Lipo II clone 1 (correct)<br>
+Lane05: Lipo II clone 2 (correct)<br>
+Lane06: Lipo VII clone 1 (not correct)<br>
+Lane07: Lipo VII clone 2 (correct)<br>
+Lane08: Lipo VIII clone 1 (correct))<br>
+Lane09: Lipo VIII clone 2 (correct)<br>
+<br>
+- NIP I -> expected bands: transfectionvector ~4100bp, Insert NIP I (=NIP A+CMV) ~ 2240bp<br>
+- NIP II -> expected bands: transfectionvector ~4100bp, Insert NIP II (=NIP B+CMV) ~ 1950bp<br>
+[[Image:TeamFreiburg2008_Lipo1-2_1018.jpg|100px]]<br>
+Lane01: GeneRuler 1kb DNA ladder (fermentas)<br>
+Lane02: NIP I clone 1 (not correct)<br>
+Lane03: NIP I clone 2 (correct)<br>
+Lane04: NIP II clone 1 (correct)<br>
+Lane05: NIP II clone 2 (correct)<br>
+<br>
+'''Picking clones''' <br>
+TV/CMV-CFP, TV/CMV-YFP, NIP III, IV, V, VI, VII, VIII, pMA-transmembrane-YFP<br>
+<br>
+<h3>Oct. 20th 2008</h3> <br>
+'''Miniprep and analytic digestion''' (Michael)<br>
+-TV/CMV-CFP<br>
+-TV/CMV-YFP<br>
+-pMA-transmembrane-YFP<br>
+-NIP III -> expected bands: transfectionvector ~4100bp, Insert NIP III (=NIP C+CMV) ~ 2010bp<br>
+-NIP IV -> expected bands: transfectionvector ~4100bp, Insert NIP IV (=NIP D+CMV) ~ 2180bp<br>
+-NIP V -> expected bands: transfectionvector ~4100bp, Insert NIP V (=NIP E+CMV) ~ 2010bp<br>
+-NIP VI -> expected bands: transfectionvector ~4100bp, Insert NIP VI (=NIP F+CMV) ~ 2180bp<br>
+-NIP VII -> expected bands: transfectionvector ~4100bp, Insert NIP VII (=NIP G+CMV) ~ 1880bp<br>
+[[Image:TeamFreiburg2008_NIPIII-VIII_1018.jpg|200px]]<br>
+Lane01: GeneRuler 1kb DNA ladder (fermentas)<br>
+Lane02: NIP III clone 1 (correct)<br>
+Lane03: NIP III clone 2 (correct)<br>
+Lane04: NIP IV clone 1 (not correct)<br>
+Lane05: NIP IV clone 2 (correct)<br>
+Lane06: NIP VI clone 1 (correct)<br>
+Lane07: NIP VI clone 2 (not correct)<br>
+Lane08: NIP VII clone 1 (correct))<br>
+Lane09: NIP VII clone 2 (correct)<br>
+<br>
+-NIP VIII -> expected bands: transfectionvector ~4100bp, Insert NIP VIII (=NIP H+CMV) ~ 1920bp<br>
+[[Image:TeamFreiburg2008_NIPVIII_1020.jpg|70px]]<br>
+Lane01: GeneRuler 1kb DNA ladder (fermentas)<br>
+Lane02: NIP VIII clone 1 (correct)<br>
+Lane03: NIP VIII clone 2 (correct)<br>
+<br>
+<h3>Oct. 21th 2008</h3> <br>
+'''Sequencing''' (Kathrin)<br>
+Correct:<br>
+-pMA-signalpeptide-scFV-Anti-NIP-GGGSlinker clone 1 and clone 2<br>
+-pMA-transmembrane-BB058(Luciferase) clone 1<br>
+-pMA-transmembrane-BB057(Luciferase) clone 1<br>
+-NIP A, B, E, F, and G<br>
+-Lipo A, B, C, D, E, F, G and H<br>
+Not correct(base exchanges):<br>
+-NIP C, D and H (clones 1)<br>
+<br>
+'''5ml cultures''' (Kathrin)<br>
+of the sequenced parts<br>
+<br>
+'''Phage DNA Isolation''' (Normann)<br>
+ml culture of ER2738 cells<br>
+<br>
+'''Seeding 293T cells for transfection''' (Normann)<br>
+<br>
+'''20ml cultures for transfection''' (Kathrin)<br>
+cultures of the parts using for transfection (NipI-NipVIII, TV/CMV-CFP, TV/CMV-YFP)<br>
+<br>
+<h3>Oct. 22th 2008</h3> <br>
+'''Preparative Digestion''' (Kathrin)<br>
+-YFP, CFP, transmembrane-YFP clone 1 and 2, pMA-transmembrane, NIP I and Lipo I<br>
+<br>
+'''Gelextraction of the digested constructs'''(Normann)<br>using QIAquick gel extraction kit<br><br>
+'''Miniprep''' (Kathrin)<br>
+-of the 5ml cultures of the sequenced parts<br>
+-of the 20ml cultures of the parts needed for transfection<br>
+<br>
+'''Phage DNA Isolation''' (Normann)<br>Dilution of the 50ml culture to an OD of approximately 0,1<br>
+<br>'''Doubletransfection of 293t-cells'''(Normann)
+<br>done with TV-CMV-CFP + TV-CMV-YFP, the two parts of the anti NIP-splitbla-receptor system and the two parts of the anti NIP splitluc- receptor system.
+<br>
+'''Ligation''' (Kathrin)<br>
+-Vector: pMA-transmembrane, Insert: YFP, CFP<br>
+-Vector: pMA-signalpeptide-scFV-Anti-NIP-GGGS, Insert: transmembrane-YFP, transmembrane-CFP<br>
+-Vector: pMA-signalpeptide-Lipocalin-GGGS, Insert: transmembrane-YFP, transmembrane-CFP<br>
+-Vector: Lipo I, Insert: YFP, CFP<br>
+-Vector: NIP I, Insert: YFP, CFP<br>
+'''Phage DNA Isolation''' (Normann)<br>
+Inoculate ER2738 cells with M13 phages -> shaking for approximately 4h at 37°C<br>
+<br>
+After that, spinning down 50 ml at 5000g 20min and adding 7ml PEG/NaCl and storing at 4°C. Incubation over night.
+<h3>Oct. 23th 2008</h3> <br>
+'''Detecting the new origami at the AFM (Normann)''' <br>
+[[Image:Origamis2FreiGEM08.JPG‎]]<br>
+'''Sequencing''' (Kathrin)<br>
+Correct:<br>
+-TV/CMV-CFP clone 1<br>
+-NIP C, D and H clones 2<br>
+<br>
+>'''Doubletransfection of 293t-cells'''(Normann)
+<br>done with TV-CMV-CFP + TV-CMV-YFP, the two parts of the anti NIP-splitbla-receptor system, the two parts of the anti NIP splitluc- receptor system and the two parts of the anti NIP split GFP receptor system.<br><br>
+'''Preparative Digestion''' (Kathrin)<br>
+NIP C, D and H (clones 2)<br>
+'''Ligation''' (Kathrin)<br>
+Using Quick ligase<br>
+Vector: TV/CMV<br>
+Insert: NIP C, D and H (clones 2)<br>
+<br>
+'''Transformation''' (Michael<br>
+of the ligations (see above)<br>
+'''5ml cultures''' (Kathrin)<br>
+-NIP C, D and H (clones 2)<br>
+-pMA-signalpeptide-NIP-GGGS clone 1 and 2<br>
+-pMA-transmembrane-betaLactamase1 clone 1<br>
+-pMA-transmembrane-betaLactamase2 clone 1<br>
+-pMA-transmembrane-BB058(Splitluciferase) clone 1<br>
+-pMA-transmembrane-BB057(Splitluciferase) clone 1<br>
+<br>
+'''Miniprep''' (Sabine)<br>
+-NIP C, D and H (clones 2)<br>
+-pMA-signalpeptide-NIP-GGGS clone 1 and 2<br>
+-pMA-transmembrane-betaLactamase1 clone 1<br>
+-pMA-transmembrane-betaLactamase2 clone 1<br>
+-pMA-transmembrane-BB058(Splitluciferase) clone 1<br>
+-pMA-transmembrane-BB057(Splitluciferase) clone 1<br>
+<br>
+'''Ligation(2nd try)''' (Simone)
+Using Quick ligase<br>
+Vector: TV/CMV<br>
+Insert: NIP C, D and H (clones 2)<br>
+<br>
+'''Transformation''' (Sabine)<br>
+of the ligations (see above)<br>
+<br>
+<h3>Oct. 24th 2008</h3> <br>
+'''Analytic digestion''' (Sabine)<br>
+- NIP I+YFP-> expected bands: transfectionvector ~4100bp, Insert NIP I+YFP(=NIP A+CMV+YFP) ~ 2940bp<br>
+- NIP I+CFP-> expected bands: transfectionvector ~4100bp, Insert NIP I+CFP(=NIP A+CMV+CFP) ~ 2940bp<br>
+- Lipo I+YFP -> expected bands: transfectionvector ~4100bp, Insert Lipo I+YFP (=Lipo A+CMV+YFP) ~ 2730bp<br>
+- Lipo I+CFP -> expected bands: transfectionvector ~4100bp, Insert Lipo I+CFP (=Lipo A+CMV+CFP) ~ 2730bp<br>
+[[Image:TeamFreiburg2008_NIP+YFPusw_1024.jpg|250px]]<br>
+Lane01: GeneRuler 1kb DNA ladder (fermentas)<br>
+Lane02: NIP I+YFP clone 1 (correct)<br>
+Lane03: NIP I+YFP clone 2 (correct)<br>
+Lane04: NIP I+YFP clone 3 (correct)<br>
+Lane05: NIP I+CFP clone 1 (correct)<br>
+Lane06: NIP I+CFP clone 2 (correct)<br>
+Lane07: ---<br>
+Lane08: Lipo I+YFP clone 1 (correct)<br>
+Lane09: Lipo I+YFP clone 2 (correct)<br>
+Lane10: Lipo I+CFP clone 1 (correct)<br>
+<br>
+'''staining cells with LiveBLAzer from invitrogen'''(Normann,Michael)
+<br> The cells which should have expressed both parts of the anti NIP bla receptor system were stained with LiveBLAzer, using the protocol of the invitrogen LiveBLAzer Kit.<br><br>
+'''Preparative digestion''' (Sabine)<br>
+-pMA-Signalpeptide-scFV-Anti-NIP-transmembrane-YFP<br>
+-pMA-Signalpeptide-Lipocalin-transmembrane-YFP<br>
+<br>
+'''Miniprep''' (Kathrin)<br>
+-pMA-transmembrane-YFP and pMA-transmembrane-CFP<br>
+-NIP I-YFP, NIP I-CFP, Lipo I-YFP, Lipo I-CFP<br>
+<br>
+'''Preparative digestion''' (Kathrin)<br>
+pMA-transmembrane-YFP and pMA-transmembrane-CFP with NgoMIV and PstI<br>
+<br>
+'''Ligation and transformation''' (Sabine) <br>
+Using Quick ligase<br>
+-Vector: pMA-signalpeptide-scFv-Anti-NIP-GGGS, Insert: transmembrane-YFP, transmembrane-CFP<br>
+-Vector: TV/CMV Insert: scFv-Anti-NIP-transmembrane-YFP<br>
+<br>
+<h3>Oct. 25th 2008</h3> <br>
+'''Miniprep and analytic digestion''' (Sabine)<br>
+NIP III, NIP IV and NIP VIII<br>
+-> NIP IV showed not the expected bands -> new clones were picked (clones 4-7)<br>
+<br>
+'''Ligation and transformation(2nd try)''' (Sabine)<br>
+Using Quick ligase<br>
+-Vector: pMA-signalpeptide-scFv-Anti-NIP-GGGS, Insert: transmembrane-YFP, transmembrane-CFP<br>
+-Vector: TV/CMV Insert: scFv-Anti-NIP-transmembrane-YFP<br>
+<br>
+'''Seeding 293T cells for transfection''' (Sabine)<br>
+<br>
+<h3>Oct. 26th 2008</h3> <br>
+'''Miniprep and analytic digestion''' (Kathrin)<br>
+-NIP IV (clones 4-7)<br>
+-pMA-signalpeptide-scFv-anti-NIP-GGGS-transmembrane-CFP<br>
+<br>
+'''Preparative digestion''' (Kathrin)<br>
+-pMA-signalpeptide-scFV-anti-NIP-transmembrane-CFP with XbaI and PstI<br>
+-TV/CMV with SpeI and PstI<br>
+<br>
+'''Picking clones''' (Kathrin)<br>
+-pMA-signalpeptide-scFv-Anti-NIP-transmembrane-YFP, pMA-signalpeptide-scFv-Anti-NIP-transmembrane-CFP<br>
+-transfectionvector-Lipocalin-transmembrane-YFP, transfectionvector-scFV-Anti_NIP-transmembrane-YFP<br>
+<br>
+'''Ligation''' (Sabine)<br>
+-Vector: TV/CMV, Insert: NIP D clone 2 (2nd try, since the analytic digestion of several clones showed not the expected bands)<br>
+-Vector: TV/CMV, Insert: scFV-Anti-NIP-GGGS-transmembrane-CFP, scFV-Anti-NIP-GGGS-transmembrane-YFP<br>
+<br>
+'''Transformation''' (Michael)<br>
+of the ligations (see above)<br>
+<br>
+'''Transfection of 293T cells''' (Sabine)<br>
+For transfection 2µg DNA (4µg DNA for double transfection) was used<br>
+) Double transfection with NIP I and NIP II<br>
+) Double transfection with NIP III and NIP IV<br>
+) Double transfection with NIP V and NIP VI<br>
+) Double transfection with NIP VII and NIP VIII<br>
+) NIP I-YFP<br>
+) NIP I-CFP<br>
+) Lipo I-YFP<br>
+) Lipo I-CFP<br>
+) TV/CMV-YFP 1<br>
+)TV/CMV-CFP<br>
+)TV/CMV-YFP A<br>
+)Negative control<br>
+<br>
+<h3>Oct. 27th 2008</h3> <br>
+'''fluorescence microscopy''' (Michael, Sabine, Kathrin)<br>
+analysis of the transfected cells 1)-12) via fluorescence microscopy.<br>
+)  no result <br>
+)  no result <br>
+)  no result <br>
+)  no result <br>
+)  no result <br>
+)  no result <br>
+)  as expected <br>
+)  as expected <br>
+)  as expected <br>
+) as expected <br>
+) as expected <br>
+) as expected <br><br>
+Analysis of the split beta Lactamase was performed by LiveBLAzer (invitrogen). After loading the cells with CCF4-AM the molecule is converted into CCF4 by an esterase in the cell. Beta Lactamase splits the FRET-pair CCF4 (absoption 409, emission 520nm) into two fragments. One of the fragments can still be stimulated by 409nm to detect an emission at 447nm)<br><br>
+[[Image:Freiburg2008_SP_LIPO_GGGS_TM_bla1_YFP 1.jpg|600px]]<br>
+<br><br>
+[[Image:Freiburg2008_SP_LIPO_GGGS_TM_bla1_YFP 2.jpg|600px]]<br>
+'''Figure_fluorescence microscopy 1''' brightfield and UV-light picture with YFP-filter. The 293T cells are transfected with the construct: Transfectionsvector+CMV_SP_Lipocalin_GGGS-linker_transmembraneregion_beta-Lactamase-fragment1_YFP.<br><br><br>
+[[Image:Freiburg2008_TV_CMV_YFP   CFP_loeslich.jpg|600px]]<br>
+'''Figure_fluorescence microscopy 2''' brightfield and UV-light picture with YFP- and CFP-filter. The 293T cells are transfected with the constructs: '''upper:'''Transfectionsvector+CMV_YFP '''lower:'''Transfectionsvector+CMV_CFP<br><br>
+The pictures show cleary the difference between soluble YFP/CFP '''Figure_fluorescence microscopy 2''' and the membranelocalised YFP fused to the synthetic receptor construct '''Figure_fluorescence microscopy 1''' "transfectionsvector+CMV_SP_Lipocalin_GGGS-linker_transmembraneregion_beta-Lactamase-fragment1_YFP". The principle to localise our synthetic fusion-receptor-proteins to cell membrane is proved. <br>
+<!--<h3>Oct. 28th 2008</h3> <br>-->
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