To Do:

Friday:

  • Nanodrop pENTR (was not useful)
  • Transform pENTR into bacteria
  • Incubate over night
  • (5pm) Add Kan, incubate GGDonr liq culture (16hrs)

Saturday:

  • Remove GGDonr liq culture from incubator (9am)
  • Make cell stock, store at -80 degrees
  • Put rest of cell culture in 4 degrees
  • Remove pENTR cultures from incubator (10:30am, Shinjini)
  • Pick cells from pENTR colonies, put in liquid culture, put in incubator at 12pm
  • Pick cells from pENTR colonies, put in liquid culture, put in incubator at 5:30pm (16 hours)

Sunday:

  • Take pENTR colonies from incubator. Make cell stock. Put in fridge and freezer respectively. (10 am). Did not work.

Monday:

  • Miniprep GGDonr (is that a good idea?)
  • Pick Cells again and incubate (at 6pm)

Tuesday:

  • Miniprep pENTRs
  • Make 5 femptomolar working solution
  • LR (~ 16 hours min, 24 max)
  • PCR (possibly)



June 9

Plan of Action

 - Build hef1+lilrb2

  - design cloning strategy 

  - acquire promoter

  - acquire pdest 

  - build pentr lilrb2 

   - resuspend gblocks 

   - acquire gg domd

   - run a golden gate

Questions: 

  1. How do we turn a gblock into an entry vector?
  2. Can we get beta-amyloid in both monomer and oligomer form instead of just monomers that we would have to oligomerize?
  3. Do we need the cells to be expressing GFP?

June 10 

Answers:

  1. We will work on that later today
  2. No preference
  3. Makes for pretty pictures and not hard to do since we're already transfecting a plasmid

June 11

Making LilrB2/PirB expression vectorsStart DateCompleted? (Date)ResultLocation of part (if needed, I don't know)

Making pENTR from gBlocks:

We have:
Q1_LilrB2_Qx
Q1_PirB-N_Q2, Q2_PirB-C_Qx

We need:
pGGDONR : has Q1 and Qx sites, L1 and L2 sites

Golden-gating will result in:
pENTR_L1_LilrB2_L2 (order of L's correct, I checked!)
pENTR_L1_PirB2_L2

6/12  GG mixtures in fridge (in case transformations did not work)

After that, Gateway (LR):
pENTR_L1_LilrB2_L2
pENTR_L4_Hef1a_R1 (not sure if this is the one we want)
pZDonor 1-GTW-2 (this is the DEST Shinjini used in her Geneious)

Same for PirB
pENTR_L1_PirB_L2
pENTR_L4_Hef1a_R1
pZDonor 1-GTW-2

We will get:

12_Hef1a_LilrB2
12_Hef1a_PirB

    


6/12/14

GoldenGate table:

AddConcVolm(x) LilrB2PirBControlOrder of adding
PirB-N10ng/ul5ul 0ul5ul0ul2
PirB-C10ng/ul5ul 0ul5ul0ul2
LilrB210ng/ul5ul 5ul0ul0ul2
GGDonr44.8ng/ul2.23ul 2.23ul2.23ul2.23ul2
10x T4 Ligase Buffer 2ul 2ul2ul2ul3
BSA 2ul 2ul2ul2ul3
BsaI (enzyme) 1ul 1ul1ul1ul4
T4 Ligase (enzyme) 1ul 1ul1ul1ul3
H20   6.77ul1.77ul11.77ul1
        
Total 20ul 20ul20ul20ul 
1LilrB2
2PirB
3Control
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