Abstract
Genomic distances based on the number of rearrangement steps – inversions, transpositions, reciprocal translocations – necessary to convert the gene or segment order of one genome to that of another are potentially meaningful measures of evolutionary divergence. The significance of a comparison between two genomes, however, depends on how it differs from the case where the order of the n segments constituting one genome is randomized with respect to the other. In this presentation, we discuss the comparison of randomized segment orders from a probabilistic and statistical viewpoint as a basis for evaluating the relationships among real genomes. The combinatorial structure containing all the information necessary to calculate genomic distance d is the bicoloured “breakpoint graph”, essentially the union of two bipartite matchings within the set of 2n segment ends, a red matching induced by segment endpoint adjacencies in one genome and black matching similarly determined by the other genome. The number c of alternating-colour cycles in the breakpoint graph is the key component in formulae for d. Indeed, d ≥ n–c, where equality holds for the most inclusive repertory of rearrangement types postulated to account for evolutionary divergence.
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© 2006 Springer-Verlag Berlin Heidelberg
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Sankoff, D. (2006). Statistical Evaluation of Genome Rearrangement. In: Apostolico, A., Guerra, C., Istrail, S., Pevzner, P.A., Waterman, M. (eds) Research in Computational Molecular Biology. RECOMB 2006. Lecture Notes in Computer Science(), vol 3909. Springer, Berlin, Heidelberg. https://doi.org/10.1007/11732990_8
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DOI: https://doi.org/10.1007/11732990_8
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-540-33295-4
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