JEV-AllHosts-Phylogeo

This file contains all sequence data and the discrete character coding used for the ancestral reconstruction of geographic state

Bahl et al H6 Dataset

Bahl et al H6 Datase

Bahl et al H9 Dataset

Bahl et al H9 Datase

Bahl et al H3 Dataset

Bahl et al H3 Datase

Mean migration rates between avian ecosystems across sampling locations.

<p>Statistically supported interactions are shown in bold. Italicized text indicates interactions between ecosystems.</p

SuppDataFile2 - Sequence Metadata

This file contains all the associated metadata used in the ancestral reconstruction of discrete geographic states

Phylogenetic estimation of ecological interactions and geographic spread.

<p>(<b>A)</b> H9-HA phylogenetic tree for global isolates where branches are coloured according to discrete geographic region and thick and thin lines indicate ancestral transitions between natural and agricultural ecosystems respectively (<b>B)</b> Graph showing the proportional Markov jump counts between ecosystems over time (<b>C)</b> Heat maps showing mean H9 migrations estimated to and from East China per year. Heat maps for other regions are shown in <a href="http://www.plospathogens.org/article/info:doi/10.1371/journal.ppat.1005620#ppat.1005620.s010" target="_blank">S4 Fig</a>.</p

Mean waiting times for the H9 population in each state calculated as a proportion of the total branch times across the phylogenetic tree sampled per MCMC^*.

<p>Mean waiting times for the H9 population in each state calculated as a proportion of the total branch times across the phylogenetic tree sampled per MCMC^{<a href="http://www.plospathogens.org/article/info:doi/10.1371/journal.ppat.1005620#t001fn001" target="_blank">*</a>}.</p

Inferred migration rates and patterns.

<p><b>(A)</b> Map showing statistically supported transitions between geographic regions by ecosystem. Line thickness corresponds to viral flow rates shown in <a href="http://www.plospathogens.org/article/info:doi/10.1371/journal.ppat.1005620#ppat.1005620.t002" target="_blank">Table 2</a> (thinnest<0.5; ≥0.5<1; ≥1<2;≥ 2 thickest). (<b>B)</b> Density distribution of statistically supported mean transition rates between ecosystems. *Domestic-to-domestic rates are significantly faster than domestic-to-wild (BF>100), wild-to-domestic (BF = 62.3), and wild-to-wild (BF = 39.4). (<b>C)</b> Statistically supported mean migration rates per MCMC step of wild-to-wild avian transitions versus domestic-to-domestic avian transitions.</p