Header

UZH-Logo

Maintenance Infos

Sequencing of the genus Arabidopsis identifies a complex history of nonbifurcating speciation and abundant trans-specific polymorphism


Novikova, Polina Yu; Hohmann, Nora; Nizhynska, Viktoria; Tsuchimatsu, Takashi; Ali, Jamshaid; Muir, Graham; Guggisberg, Alessia; Paape, Tim; Schmid, Karl; Fedorenko, Olga M; Holm, Svante; Säll, Torbjörn; Schlötterer, Christian; Marhold, Karol; Widmer, Alex; Sese, Jun; Shimizu, Kentaro K; Weigel, Detlef; Krämer, Ute; Koch, Marcus A; Nordborg, Magnus (2016). Sequencing of the genus Arabidopsis identifies a complex history of nonbifurcating speciation and abundant trans-specific polymorphism. Nature Genetics, 48(9):1077-1082.

Abstract

The notion of species as reproductively isolated units related through a bifurcating tree implies that gene trees should generally agree with the species tree and that sister taxa should not share polymorphisms unless they diverged recently and should be equally closely related to outgroups. It is now possible to evaluate this model systematically. We sequenced multiple individuals from 27 described taxa representing the entire Arabidopsis genus. Cluster analysis identified seven groups, corresponding to described species that capture the structure of the genus. However, at the level of gene trees, only the separation of Arabidopsis thaliana from the remaining species was universally supported, and, overall, the amount of shared polymorphism demonstrated that reproductive isolation was considerably more recent than the estimated divergence times. We uncovered multiple cases of past gene flow that contradict a bifurcating species tree. Finally, we showed that the pattern of divergence differs between gene ontologies, suggesting a role for selection.

Abstract

The notion of species as reproductively isolated units related through a bifurcating tree implies that gene trees should generally agree with the species tree and that sister taxa should not share polymorphisms unless they diverged recently and should be equally closely related to outgroups. It is now possible to evaluate this model systematically. We sequenced multiple individuals from 27 described taxa representing the entire Arabidopsis genus. Cluster analysis identified seven groups, corresponding to described species that capture the structure of the genus. However, at the level of gene trees, only the separation of Arabidopsis thaliana from the remaining species was universally supported, and, overall, the amount of shared polymorphism demonstrated that reproductive isolation was considerably more recent than the estimated divergence times. We uncovered multiple cases of past gene flow that contradict a bifurcating species tree. Finally, we showed that the pattern of divergence differs between gene ontologies, suggesting a role for selection.

Statistics

Citations

26 citations in Web of Science®
21 citations in Scopus®
Google Scholar™

Altmetrics

Downloads

28 downloads since deposited on 04 Aug 2016
20 downloads since 12 months
Detailed statistics

Additional indexing

Item Type:Journal Article, refereed, original work
Communities & Collections:07 Faculty of Science > Institute of Evolutionary Biology and Environmental Studies
Dewey Decimal Classification:570 Life sciences; biology
590 Animals (Zoology)
Language:English
Date:2016
Deposited On:04 Aug 2016 09:13
Last Modified:08 Dec 2017 20:03
Publisher:Nature Publishing Group
ISSN:1061-4036
Free access at:Publisher DOI. An embargo period may apply.
Publisher DOI:https://doi.org/10.1038/ng.3617
PubMed ID:27428747

Download

Download PDF  'Sequencing of the genus Arabidopsis identifies a complex history of nonbifurcating speciation and abundant trans-specific polymorphism'.
Preview
Content: Published Version
Filetype: PDF
Size: 2MB
View at publisher