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GENETICALLY ENCODED FLUORESCENT NANOPROBES FOR DETECTION OF RNA INTERACTIONS

Objective

"Achieving a quantitative understanding of the transcriptome is critical to the development of RNA biology and RNA-based therapeutics. One of the main “road-blocks” to the advancement of these fields is the inability, at present, to dynamically track most RNA molecules in vivo. In order to achieve a quantitative understanding of RNA interactions in vivo, we propose to develop a new class of genetically encoded fluorescent probes that will be designed to dynamically track gene expression (mRNA), miRNA trans-interactions, riboswitch or hairpin-type cis-interactions, ribozyme, and any other class of ncRNA.
The probes will consist of large self-assembled RNA-FP complexes that will report RNA-RNA interaction dynamically via an engineered structural change that will be detected through a change in fluorescence. The signal will consist of a change in the light polarization, and will be detected by a novel implementation of a polarization Total Internal Reflection Fluorescence (polTIRF) microscope design, which will enable the detection of small structural changes within the nanoprobe at fast sampling rates.
In this proposal, I intend to develop, in bacteria, the first generation of these probes. Development of the probes and the imaging apparatus will take place simultaneously, in order to optimize both detection capability and the probe design. The development and demonstration of the probes' capabilities will be guided by three objectives, each divided into individual milestones and sub-projects. In particular, I intend to use this approach to quantitatively characterize synthetic hammerhead ribozyme trans interaction, cis-acting RNA thermosensors, and the Hfq RNA-protein complex. I believe that successful implementation of this combined molecular and imaging tool to quantitatively characterize the kinetics associated with RNA-RNA trans/cis-interactions will constitute a proof-of-principle to the broad applicability for our method to other RNA-based platforms."

Field of science

  • /natural sciences/biological sciences/genetics and heredity/rna

Call for proposal

FP7-PEOPLE-2012-CIG
See other projects for this call

Funding Scheme

MC-CIG - Support for training and career development of researcher (CIG)
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Coordinator

TECHNION - ISRAEL INSTITUTE OF TECHNOLOGY
Address
Senate Building Technion City
32000 Haifa
Israel
Activity type
Higher or Secondary Education Establishments
EU contribution
€ 100 000
Administrative Contact
Mark Davison (Mr.)