Using high-density mutagenesis to identify the genetic requirements for the growth of Escherichia coli

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dc.check.date2022-08-21T10:22:21Z
dc.check.embargoformatApply the embargo to the e-thesis on CORA (If you have submitted an e-thesis and want to embargo it on CORA)en
dc.check.entireThesisEntire Thesis Restricted
dc.check.infoRestricted to everyone for three yearsen
dc.check.opt-outNot applicableen
dc.check.reasonThis thesis is due for publication or the author is actively seeking to publish this materialen
dc.contributor.advisorClarke, David J.en
dc.contributor.authorButtimer, Finbarr James
dc.contributor.funderIrish Research Councilen
dc.date.accessioned2019-08-22T10:22:21Z
dc.date.issued2019
dc.date.submitted2019
dc.description.abstractEscherichia coli is highly adapted to life within the mammalian gastrointestinal (GI) tract, capable of adapting to multiple environments en route to colonising the intestine. Moreover, the means by which the species copes with changes in the microenvironments of the GI tract strongly influences the nature of E. coli's relationship with the host i.e. whether it exists as a commensal or pathogen. However, the response of E. coli to many of these conditions is complex, often employing a whole-cell response. This necessitates the use of high-throughput approaches in order to fully understand factors the bacterium requires for growth under these conditions. This work outlines the use of transposon-directed insertion site sequencing (TraDIS) to describe genetic requirements for fitness of E. coli K-12 MG1655 during growth in the presence of bile and under anaerobic conditions in the presence of nitrate, representative of bile exposure in the duodenum and conditions of inflammation in the intestine. TraDIS reveals, in detail, genetic requirements for growth under these conditions, revealing new roles for many genes with no prior association with growth under these conditions. This work will, therefore, contribute to future studies of E. coli colonisation of the GI tract by identifying candidate genes required for fitness under these growth conditions.en
dc.description.statusNot peer revieweden
dc.description.versionAccepted Version
dc.format.mimetypeapplication/pdfen
dc.identifier.citationButtimer, F. J. 2019. Using high-density mutagenesis to identify the genetic requirements for the growth of Escherichia coli. PhD Thesis, University College Cork.en
dc.identifier.endpage377en
dc.identifier.urihttps://hdl.handle.net/10468/8373
dc.language.isoenen
dc.publisherUniversity College Corken
dc.relation.projectIrish Research Council (GOIPG/2014/686)en
dc.rights© 2019, Finbarr James Buttimer.en
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/3.0/en
dc.subjectE. colien
dc.subjectTraDISen
dc.subjectBileen
dc.subjectNitrateen
dc.thesis.opt-outfalse
dc.titleUsing high-density mutagenesis to identify the genetic requirements for the growth of Escherichia colien
dc.typeDoctoral thesisen
dc.type.qualificationlevelDoctoralen
dc.type.qualificationnamePhDen
ucc.workflow.supervisordavid.clarke@ucc.ie
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