Strong selective sweeps associated with ampliconic regions in great ape X chromosomes

Strong selective sweeps associated with ampliconic regions in great ape X chromosomes

Kiwoong Nam, Kasper Munch, Asger Hobolth, Julien Y. Dutheil, Krishna Veeramah, August Woerner, Michael F. Hammer, Great Ape Genome Diversity Project, Thomas Mailund, Mikkel H. Schierup
(Submitted on 24 Feb 2014)

The unique inheritance pattern of X chromosomes makes them preferential targets of adaptive evolution. We here investigate natural selection on the X chromosome in all species of great apes. We find that diversity is more strongly reduced around genes on the X compared with autosomes, and that a higher proportion of substitutions results from positive selection. Strikingly, the X exhibits several megabase long regions where diversity is reduced more than five fold. These regions overlap significantly among species, and have a higher singleton proportion, population differentiation, and nonsynonymous to synonymous substitution ratio. We rule out background selection and soft selective sweeps as explanations for these observations, and conclude that several strong selective sweeps have occurred independently in similar regions in several species. Since these regions are strongly associated with ampliconic sequences we propose that intra-genomic conflict between the X and the Y chromosomes is a major driver of X chromosome evolution.


8 thoughts on “Strong selective sweeps associated with ampliconic regions in great ape X chromosomes

    • Sorry for the missing pages. I have pasted their content below:

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      Supplementary Information available online version of the paper.

      We thank Brian Charlesworth, Andy Clark and Freddy B. Christiansen for comments to the manuscript. The work was supported by the EC funded FP7 NEXTGENE project (to T.M. and M.H.S.) and by the a grant from the Danish Natural Sciences Research Council (to M.H.S.)

      Author contributions
      K.N. and M.H.S. conceived and designed the experiments
      K.N., K.M., A.H., J.Y.D., K.V., A.W., M.F.H., and T.M. performed analysis
      K.M. performed simulations
      G.A.G.D.P. contributed materials
      K.N. and M.H.S. wrote the paper with input from all authors

  1. Thank you for the request.
    I just resubmitted the full manuscript with supplementary to Arxiv.


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