Characterization B: Expression of PHIX174 promoters fused to UTR1-deGFP.
- While I was away, Fillipo attempted to construct these. Either transformants didn't grow, or the negative control ligation showed colonies.
- Started again by making pBEST-SphI//NcoI-deGFP-T500 linker by digesting 67nM stock pBEST-OR2OR1Pr-UTR1-deGFP-T500 with SphI and NcoI (20 μL total volume), following by gel extraction.
- Gel showed a line at 2.5 kb as expected. Uncut plasmid DNA sample showed farther migration and higher order species, as expected.
- [pBEST-SphI//NcoI-deGFP-T500] = 15 nM, via quantifluore DNA quantification.
- Ligated 0.5 μL pBEST-SphI//NcoI-deGFP-T500 backbone and 5 μL 100nM SphI-PA-UTR1-NcoI linker (ratio ~1:67). Negative control sub water for linker.
Characterization C: Expression of PHIX174 promoters fused to UTRX-deGFP.
- While I was away, Fillipo attempted to construct these. Either transformants didn't grow, or the negative control ligation showed colonies.
- Started again by making pBEST-SphI//NheI-deGFP-T500 linker by digesting 67nM stock pBEST-OR2OR1Pr-UTR1-deGFP-T500 with SphI and NheI (30 μL total volume), following by gel extraction.
- Gel showed a line at 2.5 kb as expected. Uncut plasmid DNA sample showed farther migration and higher order species, as expected.
- [pBEST-SphI//NheI-deGFP-T500] = 16 nM, via quantifluore DNA quantification.
- Ligated 0.5 μL pBEST-SphI//NheI-deGFP-T500 backbone and 5 μL 100nM SphI-PA-UTRA-NheI linker (ratio ~1:62). Negative control sub water for linker.
Hypothesis 2: Gene L is necessary for phage propagation.
- Previously, I demonstrated that pWhitescript could be amplified by whole plasmid PCR using the control primers included in the Quickchange II kit. Template- NC showed no amplification. Following the manual's protocol exactly, I made a 50 μL PFU PCR mix that included everything except primers and and then divided it by three. In the three tubes, I placed template (0.1 nmol final) and primers (200nM final):
- Negative control: ΦX174 sense and antisense primers
- Reaction: ΦX174 template, ΦX174 sense and antisense primers
- Positive control: pWhitescript template, pWhitescript sense and antisense primers
- Thermal cycling was exactly as specified in the manual, with a 10 min elongation step and 20 total cycles of PCR.
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PHIX174 Cell Free Expression
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