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. 2019 Dec 23;8(1):36. doi: 10.3390/microorganisms8010036

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© 2019 by the authors.

Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).

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Cluster transmission of CRF02_AG, including Italian MSM. The upper part (A) shows the likelihood mapping of the analyzed sequences used for the phylogenetic tree reconstruction, based on 10,000 random quartets. The central triangle is the probability of obtaining a star-type topology. The central part (B) represents the consensus tree obtained visualized with FigTree; the colored branches represent the posteriority, and to each node, the corresponding node age is associated. The lower part (C) represents historical demographic trends in sampled, with a Bayesian skyline plot; on the x axis, the date for sampling year is shown; on the y axis the effective population size is shown.