The inferred spatiotemporal dynamics of BDV in Pyrenean chamois.

<p>The figure summarize the most significant migration links in the interested Pyrenean area. The putative root of BDV strains is highlighted with a orange circle. More detailed results are reported in supplementary panels (<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0168232#pone.0168232.s002" target="_blank">S2 Fig</a>) and at <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0168232#pone.0168232.s003" target="_blank">S1 Video</a>.</p

Time of the most common ancestor estimates of Pyrenean chamois BDV, credibility interval (95% HPD) of the main clades observed in the MCC tree, with the corresponding most probable locations, and state posterior probability.

<p>Time of the most common ancestor estimates of Pyrenean chamois BDV, credibility interval (95% HPD) of the main clades observed in the MCC tree, with the corresponding most probable locations, and state posterior probability.</p

The maximum clade credibility (MCC) tree of CCHFV S gene sequences.

<p>The branches are coloured on the basis of the most probable location of the descendent nodes (A=Africa, AL=Albania, ASC=Central Asia, BU=Bulgaria, CH=China, G=Greece, KO=Kosovo, MO=Middle East, PA=Pakistan, T=Turkey). The numbers on the internal nodes indicate significant posterior probabilities (pp>0.8), and the scale at the bottom of the tree represents the number of years before the last sampling time (2010). The main geographical clades (genotypes) have been highlighted.</p

The maximum clade credibility tree of BDV 5’ UTR from Pyrenean chamois.

<p>The branches are coloured on the basis of the most probable location of the descendent nodes (Alt Pallars = APA, Alta Ribagorça = ARI, Andorra = AND, Aran = ARA, Cadí = CAD, Cerdanya-Alt Urgell = CER, Freser-Setcases = FRE). The numbers on the internal nodes indicate significant posterior probabilities (pp>0.8), and the scale at the bottom of the tree represents the number of years before the last sampling time (2011). The main geographical clades corresponding to Western, Eastern, and Central Pyrenean areas have been highlighted.</p

Bayesian maximum clade credibility (MCC) tree of the 202 Italian influenza A(H3N2) virus HA gene sequences.

<p>Different clusters and the Italian clades are indicated by different colours. The numbers on the internal nodes represent posterior probabilities. Amino acid substitutions characterising a particular branch are indicated. The scale at the bottom of the tree represents the calendar months between the tMRCA of the tree root and the most recent samples (March 2012).</p

Bayesian skyride plot.

<p>Ordinate: the number of effective infections at time t (Ne(t)); abscissa: time before present in calendar month. Time = 0 (present) corresponds to the sampling month of the most recent isolates (March 2012). The thick solid line represents the median value, and the grey area the 95% HPD of the Ne(t) estimates. The vertical line indicates the 95% lower HPD tMRCA estimate of the tree root.</p

Accession numbers, references, localities and collection years of the BDV chamois sequences included in the data set.

<p>Accession numbers, references, localities and collection years of the BDV chamois sequences included in the data set.</p

Study area.

<p>Map of northeastern Spain showing the distinct geographic areas of Pyrenean chamois BDV sampling location.</p

Phylogeographical mapping of CCHF S gene sequences .

<p>The bubblegrams show the frequency of gene flows (migrations) to/from ten European countries (same code as that used in Figure 1) . The surface of each circle is proportional to the percentage of observed migrations in the ML genealogy. The migrations were inferred using a modified version of the Slatkin and Maddison algorithm.</p

Accession numbers, references, localities and collection years of domestic ungulates BDV sequences included in the data set.

<p>Accession numbers, references, localities and collection years of domestic ungulates BDV sequences included in the data set.</p