ERA

Download the full-sized PDF of High resolution optical tweezers for single molecule studies of hierarchical folding in the pbuE riboswitch aptamerDownload the full-sized PDF

Analytics

Share

Permanent link (DOI): https://doi.org/10.7939/R33G6W

Download

Export to: EndNote  |  Zotero  |  Mendeley

Communities

This file is in the following communities:

Graduate Studies and Research, Faculty of

Collections

This file is in the following collections:

Theses and Dissertations

High resolution optical tweezers for single molecule studies of hierarchical folding in the pbuE riboswitch aptamer Open Access

Descriptions

Other title
Subject/Keyword
rna
riboswitch
aptamer
optical tweezers
folding
single molecule
transcription
Type of item
Thesis
Degree grantor
University of Alberta
Author or creator
foster, daniel
Supervisor and department
Woodside, Michael T. (Physics)
Examining committee member and department
Tuszynski, Jack (Physics and Oncology)
Duszyk, Marek (Physiology)
Freeman, Mark (Physics)
Department
Department of Physics
Specialization

Date accepted
2009-12-17T17:26:56Z
Graduation date
2010-06
Degree
Master of Science
Degree level
Master's
Abstract
Riboswitches are gene regulatory elements found in messenger RNA that function by changing structure upon the binding of a ligand to an aptamer domain. Single adenine-binding pbuE riboswitch aptamer RNAs were unfolded and refolded co-transcriptionally using optical tweezers for single molecule force spectroscopy. The kinetic and energetic properties of distinct folding intermediates were characterised with and without the binding of adenine. These observed intermediates were related to structural elements of the aptamer, which were found to fold sequentially, in a transcriptionally independent manner. The mechanical switch underlying the regulatory action of the riboswitch was observed directly (adenine stabilisation of the weakest helix), and the energy landscape for the folding was reconstructed. The construction of a dual-beam optical trap with separate detection and trapping laser beams manipulated and focused into a rigid, modified inverted microscope is also described. This instrument aims to achieve ångström-level resolution through careful design to reduce noise.
Language
English
DOI
doi:10.7939/R33G6W
Rights
Permission is hereby granted to the University of Alberta Libraries to reproduce single copies of this thesis and to lend or sell such copies for private, scholarly or scientific research purposes only. Where the thesis is converted to, or otherwise made available in digital form, the University of Alberta will advise potential users of the thesis of these terms. The author reserves all other publication and other rights in association with the copyright in the thesis and, except as herein before provided, neither the thesis nor any substantial portion thereof may be printed or otherwise reproduced in any material form whatsoever without the author's prior written permission.
Citation for previous publication

File Details

Date Uploaded
Date Modified
2014-04-24T22:22:37.300+00:00
Audit Status
Audits have not yet been run on this file.
Characterization
File format: pdf (Portable Document Format)
Mime type: application/pdf
File size: 15431100
Last modified: 2015:10:18 01:41:07-06:00
Filename: Foster_Daniel_Spring 2010.pdf
Original checksum: 4758f6eceda8b0c5587a4c69502d6bb1
Copyright note: Open to fair use, provided the authour received credit.
Well formed: true
Valid: false
Status message: Invalid algorithm value in encryption dictionary offset=3601
File title: <May be encrypted>
File title: Masters of Science Thesis in Physics
File author: <May be encrypted>
File author: Daniel Foster
Page count: 144
Activity of users you follow
User Activity Date