Speciation generates mosaic genomes in kangaroos
- The iconic Australasian kangaroos and wallabies represent a successful marsupial radiation. However, the evolutionary relationship within the two genera, Macropus and Wallabia, is controversial: mitochondrial and nuclear genes, and morphological data have produced conflicting scenarios regarding the phylogenetic relationships, which in turn impact the classification and taxonomy. We sequenced and analyzed the genomes of 11 kangaroos to investigate the evolutionary cause of the observed phylogenetic conflict. A multilocus coalescent analysis using ∼14,900 genome fragments, each 10 kb long, significantly resolved the species relationships between and among the sister-genera Macropus and Wallabia. The phylogenomic approach reconstructed the swamp wallaby (Wallabia) as nested inside Macropus, making this genus paraphyletic. However, the phylogenomic analyses indicate multiple conflicting phylogenetic signals in the swamp wallaby genome. This is interpreted as at least one introgression event between the ancestor of the genus Wallabia and a now extinct ghost lineage outside the genus Macropus. Additional phylogenetic signals must therefore be caused by incomplete lineage sorting and/or introgression, but available statistical methods cannot convincingly disentangle the two processes. In addition, the relationships inside the Macropus subgenus M. (Notamacropus) represent a hard polytomy. Thus, the relationships between tammar, red-necked, agile, and parma wallabies remain unresolvable even with whole-genome data. Even if most methods resolve bifurcating trees from genomic data, hard polytomies, incomplete lineage sorting, and introgression complicate the interpretation of the phylogeny and thus taxonomy.
Author: | Maria Anna NilssonORCiD, Yichen Zheng, Vikas Kumar, Matthew J. Phillips, Axel JankeORCiD |
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URN: | urn:nbn:de:hebis:30:3-463749 |
DOI: | https://doi.org/10.1093/gbe/evx245 |
ISSN: | 1759-6653 |
Pubmed Id: | https://pubmed.ncbi.nlm.nih.gov/29182740 |
Parent Title (English): | Genome biology and evolution |
Publisher: | Oxford Univ. Press |
Place of publication: | Oxford |
Contributor(s): | Ellen Pritham |
Document Type: | Article |
Language: | English |
Year of Completion: | 2017 |
Date of first Publication: | 2017/11/22 |
Publishing Institution: | Universitätsbibliothek Johann Christian Senckenberg |
Release Date: | 2018/05/03 |
Tag: | Macropus; genomics; incomplete lineage sorting; kangaroo; polytomy |
Volume: | 10 |
Issue: | 1 |
Page Number: | 12 |
First Page: | 33 |
Last Page: | 44 |
Note: | This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com |
HeBIS-PPN: | 431957436 |
Institutes: | Angeschlossene und kooperierende Institutionen / Senckenbergische Naturforschende Gesellschaft |
Biowissenschaften / Institut für Ökologie, Evolution und Diversität | |
Fachübergreifende Einrichtungen / Biodiversität und Klima Forschungszentrum (BiK-F) | |
Dewey Decimal Classification: | 5 Naturwissenschaften und Mathematik / 59 Tiere (Zoologie) / 590 Tiere (Zoologie) |
Sammlungen: | Universitätspublikationen |
Sammlung Biologie / Sondersammelgebiets-Volltexte | |
Open-Access-Publikationsfonds: | Biowissenschaften |
Licence (English): | Creative Commons - Namensnennung-Nicht kommerziell 4.0 |