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. 2019 Jan 30;5(1):eaau6947. doi: 10.1126/sciadv.aau6947

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Copyright © 2019 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works. Distributed under a Creative Commons Attribution NonCommercial License 4.0 (CC BY-NC).

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Fig. 3 — (A) Phylogeny generated using the polymorphism-aware phylogenetic method (PoMo) (23, 24). This topology for the three northern species is also supported by ML analysis of concatenated SNVs and by 43.9% of informative gene trees filtered to exclude any coding sequence genes [scaled concordance factor (CF) of 0.439, greater than the other two alternatives]. The topology shown for the three southern clade species is supported by the PoMo analysis and has a scaled CF score of 0.332. (B) One alternative topology for the northern species, supported by a scaled CF of 0.241. (C) One alternative topology for the southern species, supported by ML analysis of concatenated SNVs and a scaled CF score of 0.513, i.e., a larger proportion of gene trees that are devoid of coding genes than the other two alternative trees.