Sequential folding of a messenger RNA molecule

A single-molecule study of RNA catalysis and folding.

Using fluorescence microscopy, we studied the catalysis by and folding of individual Tetrahymena thermophila ribozyme molecules. The dye-labeled and surface-immobilized ribozymes used were shown to be functionally indistinguishable from the unmodified free ribozyme in solution. A reversible local folding step in which a duplex docks and undocks from the ribozyme core was observed directly in si...

Single-molecule transition-state analysis of RNA folding.

How RNA molecules fold into functional structures is a problem of great significance given the expanding list of essential cellular RNA enzymes and the increasing number of applications of RNA in biotechnology and medicine. A critical step toward solving the RNA folding problem is the characterization of the associated transition states. This is a challenging task in part because the rugged ene...

Messenger RNA.

Transfer rna dynamics and transfer-messenger rna accommodation in bacterial ribosomes at the single-molecule level

TRANSFER RNA DYNAMICS AND TRANSFER-MESSENGER RNAACCOMMODATION IN BACTERIAL RIBOSOMES AT THE SINGLE-MOLECULELEVEL byMAY DAHERDecember 2012Advisor: Dr. David RuedaMajor: Chemistry (Biochemistry)Degree: Doctor of PhilosophySingle-molecule spectroscopy, protein-induced fluorescence enhancement(PIFE), fluorescence resonance energy transfer (FRET), and several ...

Circadian control of messenger RNA stability. Association with a sequence-specific messenger RNA decay pathway.

Transcriptional and posttranscriptional regulation are well-established mechanisms for circadian gene expression. Among the latter, differential messenger RNA (mRNA) stability has been hypothesized to control gene expression in response to the clock. However, direct proof that the rate of mRNA turnover can be regulated by the clock is lacking. Previous microarray expression data for unstable mR...