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Analysis of metazoan DNA replication initiation using Drosophila gene amplification as a model system

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dc.contributor.advisor Terry L. Orr-Weaver. en_US
dc.contributor.author Kim, Jane Christina en_US
dc.contributor.other Massachusetts Institute of Technology. Dept. of Biology. en_US
dc.date.accessioned 2011-05-09T15:34:25Z
dc.date.available 2011-05-09T15:34:25Z
dc.date.copyright 2010 en_US
dc.date.issued 2011 en_US
dc.identifier.uri http://hdl.handle.net/1721.1/62780
dc.description Thesis (Ph. D.)--Massachusetts Institute of Technology, Dept. of Biology, February 2011. en_US
dc.description Cataloged from PDF version of thesis. en_US
dc.description Includes bibliographical references. en_US
dc.description.abstract Gene amplification in Drosophila follicle cells is an excellent model to study origin specification and developmental regulation of DNA replication in vivo. We mapped all follicle cell amplicons using a comparative genomic hybridization strategy and identified two new amplicons. We determined the precise localization of the origin recognition complex (ORC) on a genome-wide level and observed that, at the start of synchronous amplification, ORC localizes to the six amplicons with levels corresponding to the magnitude of amplification. Additionally, we investigated amplification with respect to transcription and chromatin state. The levels and timing of gene expression in some amplicons suggest that gene amplification is not exclusively a developmental strategy to promote high expression levels. Follicle cell amplicons are enriched for acetylated H4, but this mark is not sufficient for ORC localization or amplification. In addition to genome-wide analyses, we characterized the two new amplicons and discovered unique properties that make both distinctive replication models. Strikingly, DAFC-22B shows strain-specificity in amplification, a property that is correlated with the ability to localize ORC. We identified sequence differences between closely related amplifying and non-amplifying strains and used P element mediated transformation to test sufficiency for ORC binding and amplification at this region. DAFC-34B contains two genes that are expressed in follicle cells. Vm34Ca is a structural component of the vitelline membrane but is expressed prior to the onset of gene amplification. CG16956 is expressed in amplification stages but only in a small subset of follicle cells. Like the previously characterized DAFC-62D, DAFC-34B displays origin firing at two separate stages of development. However, unlike DAFC-62D, amplification at the later stage is not transcription dependent. We mapped the DAFC-34B amplification origin to 1kb by nascent strand analysis and delineated the cis requirements for origin activity, finding that a 6 kb region, but not the 1 kb origin alone, is sufficient for amplification. We analyzed the developmental localization of ORC and the MCM complex, the replicative helicase. Intriguingly, the final round of origin activation at DAFC-34B occurs in the absence of detectable ORC, though MCMs are present, suggesting a novel initiation mechanism. Our analysis of follicle cell amplicons highlights the diversity of amplification origin control mechanisms within the same cell type, which may be representative of similar regulatory diversity during S phase DNA replication. en_US
dc.description.statementofresponsibility by Jane Christina Kim. en_US
dc.format.extent 164 p. en_US
dc.language.iso eng en_US
dc.publisher Massachusetts Institute of Technology en_US
dc.rights M.I.T. theses are protected by copyright. They may be viewed from this source for any purpose, but reproduction or distribution in any format is prohibited without written permission. See provided URL for inquiries about permission. en_US
dc.rights.uri http://dspace.mit.edu/handle/1721.1/7582 en_US
dc.subject Biology. en_US
dc.title Analysis of metazoan DNA replication initiation using Drosophila gene amplification as a model system en_US
dc.title.alternative Analysis of metazoan deoxyribonucleic acid replication initiation using Drosophila gene amplification as a model system en_US
dc.type Thesis en_US
dc.description.degree Ph.D. en_US
dc.contributor.department Massachusetts Institute of Technology. Dept. of Biology. en_US
dc.identifier.oclc 719371767 en_US


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