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Abstract Detail



Phylogenomics

Hilu, Khidir [1], Black, Chelsea [2], Oza, Dipan [3].

Molecular evolution, gene informativeness and phylogenetic reconstruction.

Accelerated rate of nucleotide substitution is generally assumed to be positively associated with noise in deep level phylogenetic reconstruction. We demonstrate here that rates of nucleotide and amino acid substitution should be considered in concert in order to assess phylogenetic informativeness. To empirically evaluate these intrinsic variables, we constructed four completely overlapping data sets of genes from the plastid and mitochondrial genomes that differ in mode and tempo of evolution using the rosids lineage. The results were contrasted with phylogenetic analyses of the rosids based on sequence information from a near-genome scale study. The combination of rapid evolution and unconstrained selection provided the highest amounts of informativenes, degrees of resolution and phylogenetic accuracy. Informativeness in rapidly evolving genes declined with historic depth in contrast with the slow evolving genes. Overall, 3rd codon positions contributed the highest amount of parsimony informative sites, resolution and informativeness, but magnitude varied with mode of gene evolution. These findings are in clear contrast with the view that rapidly evolving regions and the 3rd codon position have inevitable negative impact on phylogenetic reconstruction at deep historic level due to accumulation of multiple hits and subsequent elevation in homoplasy and saturation.

Broader Impacts:


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1 - VIRGINIA TECH, Department of Biology, 2119 Derring Hall, BLACKSBURG, VA, 24061, USA
2 - Department of Cellular and Molecular Medicine, John Hopkins School of Medicine, 1830 Monument Street, Baltimore, MD, 21287, USA
3 - Virginia Tech, Department of Biological Sciences, 2119 Derring, Virginbia Tech, Blacksburg, VA, 24061, USA

Keywords:
Phylogenetics
Gene Evolution
Phylogenetic signal
rosids.

Presentation Type: Oral Paper:Papers for Topics
Session: 36
Location: Magnolia/Riverside Hilton
Date: Tuesday, July 30th, 2013
Time: 2:00 PM
Number: 36003
Abstract ID:729
Candidate for Awards:None


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