{"id":{"repo_id":"lethbridge","oai_identifier":"oai:opus.uleth.ca:10133/5488"},"canonical_url":"https://search.dev.ndltd.org/etd/lethbridge/oai:opus.uleth.ca:10133/5488","repository":{"repo_id":"lethbridge","name":"University of Lethbridge","base_url":"https://opus.uleth.ca/server/oai/request"},"display":{"title":"Structure based H/ACA guide RNA design and testing explains the structure-function relationship of H/ACA guide RNA","abstract":"H/ACA guide RNAs are a class of noncoding RNA that direct the pseudouridylation of many cellular RNA species. In most eukaryotes, H/ACA guide RNAs share a conserved hairpin-hinge-hairpin structure, where each hairpin can direct pseudouridylation when associated with evolutionarily conserved core proteins. Target selection occurs by base pairing between target RNA and single-stranded loops within each hairpin of the H/ACA guide RNA, called pseudouridylation pockets. Here, I have analyzed the structure-function relationship of H/ACA guide RNAs by applying a structure-focused approach to design H/ACA guide RNAs for pseudouridylation of novel substrates. Thereby, I designed and tested several artificial H/ACA guide RNAs that were both highly active and specific for their respective substrates in vitro. In addition, I generated multiple sub-optimal H/ACA guide RNA designs that reveal important information regarding H/ACA guide RNA features dictating productivity. My results open new avenues for evaluating, predicting/identifying, and designing cellular guide-substrate RNA combinations.","abstract_html":"H/ACA guide RNAs are a class of noncoding RNA that direct the pseudouridylation of many cellular RNA species. In most eukaryotes, H/ACA guide RNAs share a conserved hairpin-hinge-hairpin structure, where each hairpin can direct pseudouridylation when associated with evolutionarily conserved core proteins. Target selection occurs by base pairing between target RNA and single-stranded loops within each hairpin of the H/ACA guide RNA, called pseudouridylation pockets. Here, I have analyzed the structure-function relationship of H/ACA guide RNAs by applying a structure-focused approach to design H/ACA guide RNAs for pseudouridylation of novel substrates. Thereby, I designed and tested several artificial H/ACA guide RNAs that were both highly active and specific for their respective substrates in vitro. In addition, I generated multiple sub-optimal H/ACA guide RNA designs that reveal important information regarding H/ACA guide RNA features dictating productivity. My results open new avenues for evaluating, predicting/identifying, and designing cellular guide-substrate RNA combinations.","abstract_has_math":false,"creators":["Czekay, Dominic P.","University of Lethbridge. Faculty of Arts and Science"],"institution":null,"degree_name":null,"degree_level":null,"degree_discipline":null,"degree_department":null,"school":null,"contributors":[],"advisors":[],"committee_chairs":[],"committee_members":[],"year":2018,"date_issued":"2018","date_published":"2018","updated_at":"2026-07-27T20:02:38Z","subjects":["artificial guide RNAs","cellular guide-substrate RNA combinations","H/ACA guide RNA","pseudouridylation pocket","targeted pseudouridylation","Dissertations, Academic"],"languages":[],"rights":[],"rights_urls":[],"identifier_entries":[{"key":"dc:identifier","label":"Identifier","values":["hdl:10133/5488"],"render_values":[{"text":"hdl:10133/5488","href":null,"code":true}]}]},"links":{"outbound_url":null,"outbound_label":null,"outbound_source":null},"metadata_groups":[{"id":"academic_context","label":"Academic Context","entries":[{"key":"dc:date.issued","label":"Date","values":["2018"]},{"key":"dc:type","label":"Dc Type","values":["Thesis"]}]},{"id":"subjects_keywords","label":"Subjects and Keywords","entries":[{"key":"dc:subject","label":"Dc Subject","values":["artificial guide RNAs","cellular guide-substrate RNA combinations","H/ACA guide RNA","pseudouridylation pocket","targeted pseudouridylation","Dissertations, Academic"]}]},{"id":"identifiers","label":"Identifiers","entries":[{"key":"dc:identifier","label":"Identifier","values":["hdl:10133/5488"]}]},{"id":"additional","label":"Additional Metadata","entries":[{"key":"dc:description.other","label":"Dc Description Other","values":["H/ACA guide RNAs are a class of noncoding RNA that direct the pseudouridylation of many cellular RNA species. In most eukaryotes, H/ACA guide RNAs share a conserved hairpin-hinge-hairpin structure, where each hairpin can direct pseudouridylation when associated with evolutionarily conserved core proteins. Target selection occurs by base pairing between target RNA and single-stranded loops within each hairpin of the H/ACA guide RNA, called pseudouridylation pockets. Here, I have analyzed the structure-function relationship of H/ACA guide RNAs by applying a structure-focused approach to design H/ACA guide RNAs for pseudouridylation of novel substrates. Thereby, I designed and tested several artificial H/ACA guide RNAs that were both highly active and specific for their respective substrates in vitro. In addition, I generated multiple sub-optimal H/ACA guide RNA designs that reveal important information regarding H/ACA guide RNA features dictating productivity. My results open new avenues for evaluating, predicting/identifying, and designing cellular guide-substrate RNA combinations."]},{"key":"dc:title","label":"Title","values":["Structure based H/ACA guide RNA design and testing explains the structure-function relationship of H/ACA guide RNA"]}]}],"canonical_facts":{"dc:date.issued":["2018"],"dc:description.other":["H/ACA guide RNAs are a class of noncoding RNA that direct the pseudouridylation of many cellular RNA species. In most eukaryotes, H/ACA guide RNAs share a conserved hairpin-hinge-hairpin structure, where each hairpin can direct pseudouridylation when associated with evolutionarily conserved core proteins. Target selection occurs by base pairing between target RNA and single-stranded loops within each hairpin of the H/ACA guide RNA, called pseudouridylation pockets. Here, I have analyzed the structure-function relationship of H/ACA guide RNAs by applying a structure-focused approach to design H/ACA guide RNAs for pseudouridylation of novel substrates. Thereby, I designed and tested several artificial H/ACA guide RNAs that were both highly active and specific for their respective substrates in vitro. In addition, I generated multiple sub-optimal H/ACA guide RNA designs that reveal important information regarding H/ACA guide RNA features dictating productivity. My results open new avenues for evaluating, predicting/identifying, and designing cellular guide-substrate RNA combinations."],"dc:identifier":["hdl:10133/5488"],"dc:subject":["artificial guide RNAs","cellular guide-substrate RNA combinations","H/ACA guide RNA","pseudouridylation pocket","targeted pseudouridylation","Dissertations, Academic"],"dc:title":["Structure based H/ACA guide RNA design and testing explains the structure-function relationship of H/ACA guide RNA"],"dc:type":["Thesis"]},"updated_at":"2026-07-27T20:02:38Z"}