Tuesday 19^th July

Preparation of Agarose gel for DNA electrophoresis

By Terrence and Mathilde

The usual protocol was followed to prepare 600mL of agarose gel.

Biobrick characterization

Streak BL21 bacteria on LB plate

By Charlène

BL21 from glycerol stock were streaked on LB and incubated at 37°C overnight.

DH5α|K1372001 pre-culture

By Naiane

One isolated colony of DH5α|K1372001 from a Petri dish was placed in 2mL of LB + 3µL of Chloramphenicol (20µg/mL).

The Falcon tube containing the culture was incubated at 37°C overnight.

Visualization

Ligation of gBlock 1.2, 2.2, 4.1 within pUC19

By Naiane & Charlène

gBlock 1.2, 2.2, 4.1 were inserted in pUC19. Two controls were made :

• digested pUC19 with only water
• digested pUC19 without gBlock

Transformation of DH5α with 1.2, 2.2, 4.1

By Naiane & Charlène

Heat-shock competent cells were transformed with pPS16_002, pPS16_004 and pPS16_007. A control was also made (cells without plasmid). Cells were spread on LB + Ampicillin + IPTG + X-Gal Petri dishe:

• for each plasmid, one Petri dish with 50µL of cells and another with 150µL of cells
• for each control, 100µL of cells

They were incubated at 37°C overnight.

High fidelity PCR on bacteria transformed with pPS16_005 and pPS16_006

By Alice

Plasmids pPS16_005 and pPS16_006 containing gBlocks 3.1 and 3.2 were sent to sequencing. Sequencing revealed that clones 1 transformed with pPS16_005 and clone 4 transformed with pPS16_006 had the good insert in their plasmid. In order to assembled both inserts, a PCR with Q5® High-Fidelity 2X Master Mix was performed on these clones following this protocol. iPS83 and iPS126 primers were used. Annealing temperature was 72°C. After amplification, 1 µL of loading dye was added to 5µL of each PCR products. Then 5 µL of this mix were put on gel. PCR products were migrated 25min at 100V.

PCR products expected were :

Migration of pPS16_005(3.1) and pPS16_006(3.2)

Dreamtaq PCR of DH5α|pPS16_004 and DH5α|pPS16_007

By Terrence and Mathilde

DH5α|pPS16_004 and DH5α|pPS16_007 (from 18.07.2016) were amplified on PCR with the DreamTaq polymerase following the usual protocol with Tm at 57°C.

We divided the PCR mix in 4 PCR tubes: 25 μL of the mix was put in each tube. 1 clone from DH5α|pPS16_004 plate and 3 colonies from DH5α|pPS16_007 were harvested and inoculated into each tube and spread on Petri dish with LB + Ampicillin (50µg/mL) + X-Gal/IPTG (1/1000).

The PCR products were migrated on an agarose gel. No amplification was seen.

Bringging DNA Closer

Linearization of the DS_SPcasN and DS_TDcasN plasmids

By Caroline

The DS_SPcasN- and DS_TDcasN- plasmids were digested with Acc65I following the usual protocol in order to facilitated the PCR.

PCR amplification from DS-SPcasN- and DS-TDcasN- linearized plasmids and pZA21

By Caroline

The different parts needed for the bring DNA closer tool were amplify by high fidelity PCR using Q5 following usual protocol with a TM at 65°C for pZA21 and a TM at 66°C for the 5 first cycles and at 72°C for the last 25 ones for DS-SPcasN- and DS-TDcasN-. Specific primers were used to amplify. These primers will allow Gibson assembly afterward : Ptet_R and Ptet_F for the plasmids, Link-TDdcas_F and Ter_TDdcas_R for DS_TDcasN, Tet-SPdcas_F and Link-SPdcas_R for DS-SPcasN-.