Title page for ETD etd-07082004-231554

Type of Document Master's Thesis
Author Raina, Sameer
Author's Email Address sraina1@lsu.edu
URN etd-07082004-231554
Title Evolution of Base Substitution Gradients in Primate Mitochondrial Genomes
Degree Master of Science in Engineering Science (M.S.E.S.)
Department Engineering Science (Interdepartmental Program)
Advisory Committee
Advisor Name Title
Subhash Kak Committee Chair
David D. Pollock Committee Member
Ramachandran Vaidyanathan Committee Member
  • mitochondria
  • markov chain
  • bayesian
  • primate
  • clustering
Date of Defense 2004-06-17
Availability unrestricted
The availability of large amounts of genetic data from the mitochondrial DNA of species has created an unprecedented opportunity for the study of evolutionary processes. Being our closest relatives on the evolutionary tree the primates are a prime candidate for the study of evolutionary processes. The availability of large amounts of genetic data from the primates allows us to study and compare results from different phylogenetic reconstruction methods and to study and trace rudimentary evolutionary processes within the primate lineage. The evolutionary process studied here is the response of the nucleotide frequency ratios to single-strandedness of sites during mitochondrial DNA replication. This response curve is shown to be linear where the slope and intercept of the curve are related to the efficacy of the replication mechanisms and the binding capacity of the gamma-polymerase responsible for mitochondrial DNA replication. A Bayesian analysis of the response curves of the species is conducted and clustering schemes are developed to partition the species based on their response curves. These partitions are then mapped on the phylogenetic tree of the species to trace the evolution of the response curve within the primates.
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