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TATA binding protein dynamics within the cellular chromatin landscape

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dc.contributor.authorYearling, Marie N., author
dc.contributor.authorStargell, Laurie A., advisor
dc.contributor.authorLuger, Karolin, committee member
dc.contributor.authorNyborg, Jennifer K., committee member
dc.contributor.authorYao, Tingting, committee member
dc.contributor.authorSlayden, Richard A., committee member
dc.date.accessioned2007-01-03T05:54:12Z
dc.date.available2014-09-30T05:54:08Z
dc.date.issued2013
dc.description.abstractRNA polymerase II (RNAPII) is a twelve subunit enzyme that catalyzes messenger (mRNA) in eukaryotic organisms. A number of essential transcription factors associate with RNAPII to form the pre-initiation complex (PIC) at gene promoter regions. TATA binding protein (TBP) is one member of the transcription machinery indispensable for transcription. At some genes, the formation of the PIC correlates strongly with the transcription output (Ptashne, 2005). These genes have a low occupancy of TBP and other PIC components prior to activation. Upon activation, these factors assemble onto the promoter and transcriptional output increases. Genes that become active upon PIC formation are termed recruitment regulated because their transcription is regulated at the level of recruitment of the PIC to the promoter. While recruitment of the PIC is required for transcription, in many cases promoter-occupancy is not correlated with transcription output. Post-recruitment gene regulation has been conserved across evolution from prokaryotes to humans (Choy et al., 1997; Guenther et al., 2007). At these genes, TBP and RNAPII and other transcription-related factors occupy the promoter region regardless of whether transcription is occurring. Upon gene activation, the occupancy increases only slightly when compared to the increase in transcript level. These genes are described as being poised. At poised genes, these transcription proteins constitutively occupy the promoter region, but it is unknown if the promoter interaction is stable or dynamic. One principal objective of my work was to investigate TBP-promoter dynamics at the poised CYC1 gene in yeast. Due to the genetic and biochemical amenability of the yeast system, studies of the transition of poised CYC1 gene to the active form have provided key insights into the sophisticated molecular requirements involved in this post-recruitment process. To describe the dynamics of the transcription complex bound at the CYC1 promoter I developed a TBP exchange assay. The results suggest that the TBP within the RNAPII transcription complex exists in a relatively stable configuration at the poised gene prior to activation. Upon induction, TBP-promoter dynamics increased at the CYC1 gene promoter. Rapid exchange during activated transcription was also observed at other genes, including at recruitment regulated gene promoters. Overall, we found rapid TBP-promoter exchange to be associated with active transcription. From my findings I propose a model where frequently clearing the promoter offers a functional advantage to support activated transcription.
dc.format.mediumborn digital
dc.format.mediumdoctoral dissertations
dc.identifierYearling_colostate_0053A_11947.pdf
dc.identifier.urihttp://hdl.handle.net/10217/80198
dc.languageEnglish
dc.language.isoeng
dc.publisherColorado State University. Libraries
dc.relation.ispartof2000-2019
dc.rightsCopyright and other restrictions may apply. User is responsible for compliance with all applicable laws. For information about copyright law, please see https://libguides.colostate.edu/copyright.
dc.titleTATA binding protein dynamics within the cellular chromatin landscape
dc.typeText
dcterms.embargo.expires2014-09-30
dcterms.embargo.terms2014-09-30
dcterms.rights.dplaThis Item is protected by copyright and/or related rights (https://rightsstatements.org/vocab/InC/1.0/). You are free to use this Item in any way that is permitted by the copyright and related rights legislation that applies to your use. For other uses you need to obtain permission from the rights-holder(s).
thesis.degree.disciplineBiochemistry and Molecular Biology
thesis.degree.grantorColorado State University
thesis.degree.levelDoctoral
thesis.degree.nameDoctor of Philosophy (Ph.D.)

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