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.
journal_name
Genome Resjournal_title
Genome researchauthors
Deeds EJ,Hennessey H,Shakhnovich EIdoi
10.1101/gr.3033805subject
Has Abstractpub_date
2005-03-01 00:00:00pages
393-402issue
3eissn
1088-9051issn
1549-5469pii
15/3/393journal_volume
15pub_type
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