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Always read the introduction : integrating regulatory and coding sequence evolution in yeast

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Please use this identifier to cite or link to this item: http://hdl.handle.net/1928/11138

Always read the introduction : integrating regulatory and coding sequence evolution in yeast

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Title: Always read the introduction : integrating regulatory and coding sequence evolution in yeast
Author: Evangelisti, Annette
Advisor(s): Natvig, Donald
Committee Member(s): Werner-Washburne, Margaret
Miller, Rober
Conant, Gavin
Department: University of New Mexico. Biology Dept.
Subject: Saccharomyces cerevisiae
gene duplication
LC Subject(s): Saccharomyces cerevisiae--Genetics.
Gene conversion.
Molecular evolution.
Transcription factors.
Genomes
Gene expression.
Degree Level: Doctoral
Abstract: We analyze duplicate genes in a yeast, Saccharomyces cerevisiae with the aim of determining a gene’s history and to observe that gene in its genomic context. In Chapter 2 we show that the fate of a duplicate gene pair is in part determined by its genome location. Moreover, we show that for two classes of duplicate genes, resulting from either small-scale duplication or whole-genome duplication, this fate can often be assessed by measuring the patterns of asymmetry in the sequence divergence of the genes in question. In Chapter 3 we study duplicate genes in the context of their local environments by comparing the patterns of evolution in the coding sequences of duplicate genes for ribosomal proteins with their upstream non-coding sequences. We found that while the coding sequences show strong evidence of recent gene conversion events, similar patterns are not seen in the non-coding regulatory elements. These duplicated ribosomal proteins are not functionally redundant despite their very high degree of protein sequence identity. This analysis confirms that the duplicated proteins have diverged considerably in expression despite their similar protein sequences. In Chapter 4 we analyze the structure of the transcriptional regulation network and characterize the molecular evolution of both its transcriptional regulators and their regulated genes. We found that both subfunctionalization and neofunctionalization of transcription factor binding play a role in divergence.
Graduation Date: July 2010
URI: http://hdl.handle.net/1928/11138


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