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Journal Article

Contradictory phylogenetic signals in the laurasiatheria anomaly zone

MPS-Authors

Jebb,  David
Max Planck Institute for the Physics of Complex Systems, Max Planck Society;

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Vernes,  Sonja C.
Neurogenetics of Vocal Communication Group, MPI for Psycholinguistics, Max Planck Society;

Myers,  Eugene W.
Max Planck Institute of Molecular Cell Biology and Genetics, Max Planck Society;

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Supplementary Material (public)

Supplementary_Figure_S1.pdf
(Supplementary material), 163KB

Supplementary_Figure_S2.pdf
(Supplementary material), 4MB

Supplementary_Figure_S3.pdf
(Supplementary material), 494KB

Supplementary_Figure_S4.pdf
(Supplementary material), 295KB

Supplementary_File_S1.txt
(Supplementary material), 4MB

Supplementary_File_S2.txt
(Supplementary material), 7KB

Supplementary_Table_S1.xlsx
(Supplementary material), 12KB

Supplementary_Table_S2.xlsx
(Supplementary material), 64KB

Supplementary_Table_S3.xlsx
(Supplementary material), 11KB

Supplementary_Table_S4.xlsx
(Supplementary material), 2MB

Citation

Doronina, L., Hughes, G. M., Moreno-Santillan, D., Lawless, C., Lonergan, T., Ryan, L., et al. (2022). Contradictory phylogenetic signals in the laurasiatheria anomaly zone. Genes, 13(5): 766. doi:10.3390/genes13050766.


Cite as: https://hdl.handle.net/21.11116/0000-000A-8D89-D
Abstract
Relationships among laurasiatherian clades represent one of the most highly disputed topics in mammalian phylogeny. In this study, we attempt to disentangle laurasiatherian interordinal relationships using two independent genome-level approaches: (1) quantifying retrotransposon presence/absence patterns, and (2) comparisons of exon datasets at the levels of nucleotides and amino acids. The two approaches revealed contradictory phylogenetic signals, possibly due to a high level of ancestral incomplete lineage sorting. The positions of Eulipotyphla and Chiroptera as the first and second earliest divergences were consistent across the approaches. However, the phylogenetic relationships of Perissodactyla, Cetartiodactyla, and Ferae, were contradictory. While retrotransposon insertion analyses suggest a clade with Cetartiodactyla and Ferae, the exon dataset favoured Cetartiodactyla and Perissodactyla. Future analyses of hitherto unsampled laurasiatherian lineages and synergistic analyses of retrotransposon insertions, exon and conserved intron/intergenic sequences might unravel the conflicting patterns of relationships in this major mammalian clade.