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    Prokaryotic phylogenies inferred from protein structural domains

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    DeedsE-2005.pdf (235.0Kb)
    Issue Date
    2005-01-01
    Author
    Deeds, Eric J.
    Hennessey, Hooman
    Shakhnovich, Eugene I.
    Publisher
    Cold Spring Harbor Laboratory Press
    Type
    Article
    Article Version
    Scholarly/refereed, publisher version
    Metadata
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    Abstract
    The determination of the phylogenetic relationships among microorganisms has long relied primarily on gene sequence information. Given that prokaryotic organisms often lack morphological characteristics amenable to phylogenetic analysis, prokaryotic phylogenies, in particular, are often based on sequence data. In this work, we explore a new source of phylogenetic information, the distribution of protein structural domains within fully sequenced prokaryotic genomes. The evolution of the structural domains we use has been studied extensively, allowing us to base our phylogenetic methods on testable theoretical models of structural evolution. We find that the methods that produce reasonable phylogenetic relationships are indeed the methods that are most consistent with theoretical evolutionary models. This work represents, to our knowledge, the first such theoretically motivated phylogeny, as well as the first application of structural information to phylogeny on this scale. Our results have strong implications for the phylogenetic relationships among prokaryotic organisms and for the understanding of protein evolution as a whole.
    Description
    This is the publisher's version, also available electronically from http://genome.cshlp.org/content/15/3/393.
    URI
    http://hdl.handle.net/1808/17001
    DOI
    https://doi.org/10.1101/gr.3033805
    ISSN
    1088-9051
    Collections
    • Molecular Biosciences Scholarly Works [581]
    Citation
    Deeds, Eric J.; Hennessey, Hooman; Shakhnovich, Eugene I. (2005). "Prokaryotic phylogenies inferred from protein structural domains." Genome Research, 15:393-402. http://www.dx.doi.org/10.1101/gr.3033805.

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    Contact KU ScholarWorks
    785-864-8983
    KU Libraries
    1425 Jayhawk Blvd
    Lawrence, KS 66045
    785-864-8983

    KU Libraries
    1425 Jayhawk Blvd
    Lawrence, KS 66045
    Image Credits
     

     

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