研究目的
To create a light-dependent synthetic riboswitch with structural changes only occurring upon binding to one photoisomer of a ligand.
研究成果
The study successfully developed an RNA aptamer that selectively binds to the trans photoisomer of azoCm with high affinity (KD of 545 nM) and shows no binding to the cis-photoisomer. This system provides a foundation for the engineering of light-responsive synthetic riboswitches, offering a tool for the regulation of gene expression with spatial and temporal precision.
研究不足
The study focused on the development of a light-responsive RNA aptamer and its initial characterization. Further engineering is required to develop a fully functional light-responsive riboswitch. The applicability in vivo and the efficiency of the system in cellular environments remain to be explored.
1:Experimental Design and Method Selection:
The study involved the synthesis of a light-switchable azobenzene compound (azoCm) and its biophysical characterization. RNA aptamers were identified through in vitro selection (SELEX) and studied for their binding specificity and affinity.
2:Sample Selection and Data Sources:
The ligand azoCm was synthesized and characterized. RNA libraries were designed for SELEX, including a randomized region of N74 and a smaller library (N64) with preformed stem loops.
3:List of Experimental Equipment and Materials:
Equipment included UV/vis spectrometers (Specord S600 or S100), ThorLabs LEDs (M365L2 and M420L2), Jasco J-710 spectrometer for CD measurements, and MicroCal iTC200 or MicroCal PEAQ iTC200 for ITC measurements.
4:Experimental Procedures and Operational Workflow:
The SELEX process involved immobilization of azoCm on Affi-Gel 10, RNA library preparation, binding and elution steps, and amplification of eluted RNA. Light elution was introduced to enrich light-dependent aptamers.
5:Data Analysis Methods:
Binding affinities were determined by ITC. CD spectroscopy monitored conformational changes of RNA upon photoisomerization of azoCm. Deep sequencing analyzed the enrichment of specific sequences.
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Specord S600
S600
Analytik Jena
Absorption spectra recording
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ThorLabs LED
M365L2
ThorLabs
UV-light for trans-cis isomerization