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Molecular Biology

, Volume 49, Issue 3, pp 327–338 | Cite as

Rearrangement and inference of chromosome structures

  • K. Yu. Gorbunov
  • R. A. Gershgorin
  • V. A. Lyubetsky
Molecular Phylogenetics

Abstract

The chromosome structure is defined as a set of chromosomes that consist of genes assigned to one of the DNA strands and represented in a circular or linear arrangement. A widely investigated problem is to define the shortest algorithmic path of chromosome rearrangements that transforms one chromosome structure into another. When equal rearrangement costs and constant gene content are considered, the solution to the problem is known. In this work, a principally novel approach was developed that presents an exact algorithm with linear time complexity for both equal and unequal costs, in which chromosome structures defined on the same set of genes were considered. In addition, to solve the problem of the inference of ancestral chromosome structures containing different sets of genes when the original structures are fixed in leaves, exact and heuristic algorithms were developed.

Keywords

chromosome structure chromosome rearrangement effective exact algorithm ancestral structure species tree evolution along a species tree parsimony 

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Copyright information

© Pleiades Publishing, Inc. 2015

Authors and Affiliations

  • K. Yu. Gorbunov
    • 1
  • R. A. Gershgorin
    • 1
  • V. A. Lyubetsky
    • 1
  1. 1.Institute for Information Transmission Problems of the Russian Academy of Sciences (Kharkevich Institute)MoscowRussia

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