Skip to content

Research at St Andrews

Ancient polymorphisms and divergence hitchhiking contribute to genomic islands of divergence within a poplar species complex

Research output: Contribution to journalArticle

Author(s)

Tao Ma, Kun Wang, Quanjun Hu, Zhenxiang Xi, Dongshi Wan, Qian Wang, Jianju Feng, Dechun Jiang, Hamid Ahani, Richard John Abbott, Martin Lascoux, Eviatar Nevo, Jianquan Liu

School/Research organisations

Abstract

How genome divergence eventually leads to speciation is a topic of prime evolutionary interest. Genomic islands of elevated divergence are frequently reported between diverging lineages, and their size is expected to increase with time and gene flow under the speciation-with-gene-flow model. However, such islands can also result from divergent sorting of ancient polymorphisms, recent ecological selection regardless of gene flow, and/or recurrent background selection and selective sweeps in low-recombination regions. It is challenging to disentangle these nonexclusive alternatives, but here we attempt to do this in an analysis of what drove genomic divergence between four lineages comprising a species complex of desert poplar trees. Within this complex we found that two morphologically delimited species, Populus euphratica and Populus pruinosa, were paraphyletic while the four lineages exhibited contrasting levels of gene flow and divergence times, providing a good system for testing hypotheses on the origin of divergence islands. We show that the size and number of genomic islands that distinguish lineages are not associated with either rate of recent gene flow or time of divergence. Instead, they are most likely derived from divergent sorting of ancient polymorphisms and divergence hitchhiking. We found that highly diverged genes under lineage-specific selection and putatively involved in ecological and morphological divergence occur both within and outside these islands. Our results highlight the need to incorporate demography, absolute divergence measurement, and gene flow rate to explain the formation of genomic islands and to identify potential genomic regions involved in speciation.
Close

Details

Original languageEnglish
Pages (from-to)E236-E243
Number of pages8
JournalProceedings of the National Academy of Sciences of the United States of America
Volume115
Issue number2
Early online date26 Dec 2017
DOIs
StatePublished - 9 Jan 2018

    Research areas

  • Speciation, Paraphyletic, Genome divergence, Natural selection, Gene flow

Discover related content
Find related publications, people, projects and more using interactive charts.

View graph of relations

Related by author

  1. Demographic expansion and genetic load of the halophyte model plant Eutrema salsugineum

    Wang, X-J., Hu, Q-J., Guo, X-Y., Wang, K., Ru, D-F., German, D. A., Weretilnyk, E. A., Abbott, R. J., Lascoux, M. & Liu, J-Q. 22 Jun 2018 In : Molecular Ecology. Early View

    Research output: Contribution to journalArticle

  2. Recurrent origin of peripheral, coastal (sub)species of Mediterranean Senecio (Asteraceae)

    Comes, H. P., Coleman, M. & Abbott, R. J. Dec 2017 In : Plant Ecology & Diversity. 10, 4, p. 253-271

    Research output: Contribution to journalArticle

  3. Chasing ghosts: allopolyploid origin of Oxyria sinensis (Polygonaceae) from its only diploid congener and an unknown ancestor

    Luo, X., Hu, Q., Zhou, P., Zhang, D., Wang, Q., Abbott, R. J. & Liu, J. Jun 2017 In : Molecular Ecology. 26, 11, p. 3037-3049 13 p.

    Research output: Contribution to journalArticle

  4. The genome sequence of the wisent (Bison bonasus)

    Wang, K., Wang, L., Lenstra, J. A., Jian, J., Yang, Y., Hu, Q., Lai, D., Qiu, Q., Ma, T., Du, Z., Abbott, R. & Liu, J. Apr 2017 In : GigaScience. 6, 4, p. 1-5 5 p.

    Research output: Contribution to journalArticle

Related by journal

  1. Divergent biodiversity change within ecosystems

    Magurran, A. E., Deacon, A. E., Moyes, F. H., Shimadzu, H., Azeredo de Dornelas, M. A., Phillip, D. & Ramnarine, I. 20 Feb 2018 In : Proceedings of the National Academy of Sciences of the United States of America. 115, 8, p. 1843-1847 5 p.

    Research output: Contribution to journalArticle

  2. Eocene greenhouse climate revealed by coupled clumped isotope-Mg/Ca thermometry

    Evans, D., Sagoo, N., Renema, W., Cotton, L. J., Müller, W., Todd, J. A., Saraswati, P. K., Stassen, P., Ziegler, M., Pearson, P. N., Valdes, P. J. & Affek, H. P. Feb 2018 In : Proceedings of the National Academy of Sciences of the United States of America. 115, 6, p. 1174-1179 6 p.

    Research output: Contribution to journalArticle

  3. Linear response of east Greenland’s tidewater glaciers to ocean/atmosphere warming

    Cowton, T., Sole, A., Nienow, P., Slater, D. & Christoffersen, P. 16 Jul 2018 In : Proceedings of the National Academy of Sciences of the United States of America. Latest Articles

    Research output: Contribution to journalArticle

  4. Molecular mechanism of activation of human musk receptors OR5AN1 and OR1A1 by (R)-muscone and diverse other musk-smelling compounds

    Ahmed, L., Zhang, Y., Block, E., Buehl, M., Corr, M. J., Cormanich, R. A., Gundala, S., Matsunami, H., O'Hagan, D., Ozbil, M., Pan, Y., Sekharan, S., Ten, N., Wang, M., Yang, M., Zhang, Q., Zhang, R., Batista, V. & Zhuang, H. 24 Apr 2018 In : Proceedings of the National Academy of Sciences of the United States of America. 115, 17, p. E3950-E3958 9 p.

    Research output: Contribution to journalReview article

Related by journal

  1. Proceedings of the National Academy of Sciences of the United States of America (Journal)

    Nevels, M. M. (Guest editor)
    Jul 2016 → …

    Activity: Publication peer-review and editorial workEditor of research journal

  2. Proceedings of the National Academy of Sciences of the United States of America (Journal)

    Gaggiotti, O. E. (Member of editorial board)
    1 Jan 2013 → …

    Activity: Publication peer-review and editorial workPeer review of manuscripts

  3. Proceedings of the National Academy of Sciences of the United States of America (Journal)

    Smith, T. K. (Member of editorial board)
    2012 → …

    Activity: Publication peer-review and editorial workPeer review of manuscripts

  4. Proceedings of the National Academy of Sciences of the United States of America (Journal)

    Smith, T. K. (Member of editorial board)
    2008 → …

    Activity: Publication peer-review and editorial workPeer review of manuscripts

  5. Proceedings of the National Academy of Sciences of the United States of America (Journal)

    Miles, G. B. (Reviewer)
    2006 → …

    Activity: Publication peer-review and editorial workPeer review of manuscripts

ID: 251832609