Characterization of small RNAs as ribosomal regulators during gene expression in bacteria

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dc.contributor.authorCalhoun, Sydnee Hope
dc.contributor.authorUniversity of Lethbridge. Faculty of Arts and Science
dc.contributor.supervisorWieden, Hans-Joachim
dc.contributor.supervisorPatel, Trushar R.
dc.date.accessioned2023-02-10T22:08:46Z
dc.date.available2023-02-10T22:08:46Z
dc.date.issued2022
dc.degree.levelMastersen_US
dc.description.abstractRibosome-associated non-coding RNAs (rancRNAs) are a recently discovered class of small RNA (sRNA) that regulate translation via direct interactions with the ribosome. rancRNA-dependent mechanisms have been confirmed in all domains of life but are poorly understood in bacteria. Since the ribosome is highly conserved among the three domains of life, common rancRNA mechanisms likely exist. To identify such potential regulatory rancRNAs, the sRNA pools of Escherichia coli ribosomes isolated under different stress conditions were analyzed using next-generation sequencing. Bioinformatic analysis detected 67 sRNAs, including eight novel sRNAs. In parallel, rancRNA candidates were identified using previously published RNAseq datasets. One candidate, rttR, was confirmed to preferentially bind to the 70S ribosome in vitro. However, rttR does not influence protein production in vitro or in vivo. Structural in silico analysis predicts that rttR interacts with 16S ribosomal RNA helix 17, suggesting a function for rttR during ribosome biogenesis, which requires further investigation.en_US
dc.description.sponsorshipRNA Innovation (NSERC CREATE), Graduate Student Scholarship (Alberta Innovates Technology Futures), School of Graduate Studies Fellowship (University of Lethbridge), Frederick Banting and Charles Best Canada Graduate Scholarship-Master's (CIHR)en_US
dc.identifier.urihttps://hdl.handle.net/10133/6432
dc.language.isoen_USen_US
dc.proquest.subject0487en_US
dc.proquest.subject0307en_US
dc.proquestyesYesen_US
dc.publisherLethbridge, Alta. : Dept. of Chemistry and Biochemistryen_US
dc.publisher.departmentDepartment of Chemistry and Biochemistryen_US
dc.publisher.facultyArts and Scienceen_US
dc.relation.ispartofseriesThesis (University of Lethbridge. Faculty of Arts and Science)en_US
dc.subjectsmall RNAen_US
dc.subjectribosome-associated non-coding RNAen_US
dc.subjectribosomal regulatorsen_US
dc.subjectgene expressionen_US
dc.subjectEscherichia coli ribosomesen_US
dc.subjectNon-coding RNA--Researchen_US
dc.subjectGenetic translation--Researchen_US
dc.subjectRibosomes--Researchen_US
dc.subjectGenetic regulationen_US
dc.subjectEscherichia coli--Genetics--Researchen_US
dc.subjectrttRen_US
dc.subjectDissertations, Academicen_US
dc.titleCharacterization of small RNAs as ribosomal regulators during gene expression in bacteriaen_US
dc.typeThesisen_US
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