Sherlock, Miranda;
Streicher, Jeff W;
Gower, David J;
Maddock, Simon T;
Nussbaum, Ronald A;
Oommen, Oommen V;
Serra Silva, Ana;
... Wilkinson, Mark; + view all
(2024)
Genomic SNPs resolve the phylogeny of an ancient amphibian island radiation from the Seychelles.
Molecular Phylogenetics and Evolution
, Article 108130. 10.1016/j.ympev.2024.108130.
(In press).
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Abstract
Unusually for oceanic islands, the granitic Seychelles host multiple lineages of endemic amphibians. This includes an ancient (>63 million years old) radiation of eight caecilian species, most of which occur on multiple islands. These caecilians have a complicated taxonomic history and their phylogenetic inter-species relationships have been difficult to resolve. Double-digest RAD sequencing (ddRADseq) has been applied extensively to phylogeography and increasingly to phylogenetics but its utility for resolving ancient divergences is less well established. To address this, we applied ddRADseq to generate a genome-wide SNP panel for phylogenomic analyses of the Seychelles caecilians, whose phylogeny has so far not been satisfactorily resolved with traditional DNA markers. Based on 129,154 SNPs, we resolved deep and shallow splits, with strong support. Our findings demonstrate the capability of genome-wide SNPs for evolutionary inference at multiple taxonomic levels and support the recently proposed synonymy of Grandisonia Taylor, 1968 with Hypogeophis Peters, 1879. We revealed three clades of Hypogeophis (large-, medium- and short-bodied) and identify a single origin of the diminutive, stocky-bodied and pointy-snouted phenotype.
| Type: | Article |
|---|---|
| Title: | Genomic SNPs resolve the phylogeny of an ancient amphibian island radiation from the Seychelles |
| Open access status: | An open access version is available from UCL Discovery |
| DOI: | 10.1016/j.ympev.2024.108130 |
| Publisher version: | http://dx.doi.org/10.1016/j.ympev.2024.108130 |
| Language: | English |
| Additional information: | © 2024 Published by Elsevier Ltd. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/) |
| Keywords: | ddRADseq, phylogenomics, ancient clade, island biogeography, caecilian |
| UCL classification: | UCL UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Life Sciences UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Life Sciences > Div of Biosciences UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Life Sciences > Div of Biosciences > Genetics, Evolution and Environment |
| URI: | https://discovery.ucl.ac.uk/id/eprint/10193609 |
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