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Empirical assessment of RAD sequencing for interspecific phylogeny

Abstract : Next-generation sequencing opened up new possibilities in phylogenetics; however, choosing an appropriate method of sample preparation remains challenging. Here, we demonstrate that restriction-site-associated DNA sequencing (RAD-seq) generates useful data for phylogenomics. Analysis of our RAD library using current bioinformatic and phylogenetic tools produced 400x more sites than our Sanger approach (2,262,825 nt/species), fully resolving relationships between 18 species of ground beetles (divergences up to 17 My). This suggests that RAD-seq is promising to infer phylogeny of eukaryotic species, though potential biases need to be evaluated and new methodologies developed to take full advantage of such data.
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https://hal.inrae.fr/hal-02638415
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Submitted on : Friday, June 11, 2021 - 5:25:54 PM
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Astrid Cruaud, Mathieu Gautier, Maxime Galan, Julien Foucaud, Laure Sauné, et al.. Empirical assessment of RAD sequencing for interspecific phylogeny. Molecular Biology and Evolution, Oxford University Press (OUP), 2014, 31 (5), pp.1272-1274. ⟨10.1093/molbev/msu063⟩. ⟨hal-02638415⟩

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