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. 2016 Sep 16;6:33442. doi: 10.1038/srep33442

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Copyright © 2016, The Author(s)

This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/

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Whole genome nucleotide phylogeny of Legionella species. The tree was constructed using maximum likelihood approach with the RAxML method and the concatenated progressiveMAUVE alignment of 759,392 nucleotides of the 1140 protein-coding core genes. The protein phylogenetic tree as well as the tree inferred by ClonalFrame also showed the same topology. Clade 1 is shown in red, Clade 2 in green, Clade 3 in blue and Clade 4 (with a single isolate; L. rowbothamii) in cyan. The circles on the branches indicate branches with >90 bootstrap estimates out of a total of 100 generated to reconstruct the internal branches of the phylogeny.