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RNA Scaffold Overview

The results covered in this section are of the experiments overviewed in the RNA Scaffold Design section.

RNA Scaffold Data

Fig. 1. 1 L culture incubated at 37oC till 0.5 nm optical density after inoculation with 5 mL of overnight for WT PUF-PIN and 6-2/7-2 PUF-PIN. 2 mM IPTG induction for 2 hours. 200 mL cultures incubated at 37oC till 1 nm optical density after inoculation with 2 mL of overnight for WT PUF-αGFP cultures. 2 mM IPTG induction for various hours.


Fig. 2. 1 L culture incubated at 37oC till 0.5 nm optical density after inoculation with 5 mL of overnight. 2 mM IPTG induction for 2 hours. His-Tag Ni-NTA purification, centrifuged with Millipore 30kDa cutoff ultracentrifuge tubes.


Fig. 3. 1 L culture incubated at 37oC till 0.5 nm optical density after inoculation with 5 mL of overnight. 2 mM IPTG induction for 2 hours. His-Tag Ni-NTA purification, centrifuged with Millipore 30kDa cutoff ultracentrifuge tubes.



Fig. 4. In-Vitro Transcription with MEGAscript® T7 Kit (Invitrogen)

PUF Tethering Data

Fig 1. 50mL 6 well 1% agarose gel with 5 μL of 10 mg/mL EtBr, 1X TAE buffer, 130V for 25 min. PCR amplifications done in GC Buffer, 68.7oC 30 sec. annealing time, 35 cycles for amplification and 10 cycles for tethering. PUF and cCFP (lanes 2 & 6) were first amplified and then used in the tethering reaction in lane 3.


Fig 2. 50mL 6 well 1% agarose gel with 5 μL of 10 mg/mL EtBr, 1X TAE buffer, 130V for 25 min. PCR amplifications done in HF Buffer, 68.7oC 30 sec. annealing time, 10 cycles of PCR.


Fig 3. 50mL 10 well 1% agarose gel with 5 μL of 10 mg/mL EtBr, 1X TAE buffer, 130V for 25 min. PCR amplifications done in GC Buffer, 1 min. annealing time, 10 cycles of PCR, half the volume of primers used (0.5 μL instead of 1 μL).


Fig 4. 50mL 6 well 1% agarose gel with 5 μL of 10 mg/mL EtBr, 1X TAE buffer, 130V for 25 min. PCR amplifications done in GC Buffer, 68.7oC 30 sec. annealing time, 25 cycles of PCR.


Fig 5.

Conclusion