Team:Groningen/Notebook/23 July 2009

Vectors

 * Plasmid isolation from o/n cultures to gain more plasmid for comming cloning steps
 * Used Sigma plasmid isolation kit, eluted in 50ul MQ

DNA concentrations were:


 * Gradient PCR with VR/VF2 on positive controls: pSB3K3, pSB1A2-K077124 and negative controls: pUC and MQ


 * Also pSB1A2-K077124 will be cut by EcoRI and SpeI (as done on 22 July) to check the construct. The expected fragments are: 1563bp (insert specific) and 2056bp (vector).

No colonies, also after another o/n @ 37dg. So the transformation has to be redone, and as the ORI may be induced by IPTG, the transformants will be plated on LBA-Kan-IPTG then.
 * Tranformants of pSB2K3 + pBAD


 * O/n culture of single colonies
 * pSB1A2-R0010 (pLac) (from 2 different transformant, 1 single colony) in LB-Amp
 * pSB1AC3 with 3 promoters in LB-Cam
 * pSB3K3 with 3 promoters in LB-Kan


 * '''PCR on pSB1A2-R0010 (pLac), pSB1AC3 with 3 promoters,pSB3K3 with 3 promoters and the negative controls: pSB3K3 and pSB1AC3.

Pipeting scheme as done on 21 July on pSB3K3, but with a change in the PCR program: elongation time of 30sec and a Tm of 54dg. Expected fragments will be:
 * pSB1AC3 with 3 promoters - 350bp
 * pSB3K3 with 3 promoters - 350bp
 * pSB3K3 and pSB1AC3 - 316bp
 * pSB1A2-R0010 (pLac) - 438bp

Dry
As Nienke's preliminary RPU computations looked promising Jasper started to redo them using more data, and with the goal to ultimately get the results on the Wiki.

KB put the most essential equations of ArsB on the wiki. The afternoon was spent studing more closely the experimental data of the [paper] found yesterday.