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Bioinformatics Vol. 18 no. 10 2002
Pages 1305
© 2002 Oxford University Press

SAC 2002 Paper

Short inversions and conserved gene cluster

David Sankoff 1

1 Centre de recherches mathématiques, Université de Montréal, CP 6128 succursale Centre-Ville, Montréal, Québec, Canada H3C 3J7

Received on September 3, 2001 ; revised on September 6, 2001 ; accepted on October 24, 2001

Motivation: Two independent sets of recent observations on newly sequenced microbial genomes pertain to the prevalence of short inversion as a gene order rearrangement process and to the lack of conservation of gene order within conserved gene clusters. We propose a model of inversion where the key parameter is the length of the inverted fragment.

Results: We show that there is a qualitative difference in the pattern of evolution when the inversion length is small with respect to the cluster size and when it is large. This suggests an explanation of the lack of parallel gene order in conserved clusters and raises questions about the statistical validity of putative functionally selected gene clusters if these have only been tested against inappropriate null hypotheses.

Contact: sankoff{at}poste.umontreal.ca


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