Hill, A.W., Guralnick, R.P., Wilson, M.J., Habib, F., Janies, D. 2009. Evolution of Drug Resistance in Multiple Distinct Lineages of Avian Influenza (H5N1). Infection, Genetics and Evolution. 9:169-178.

Below is a list of links to supplementary materials for the paper. Email Daniel Janies to request a copy of the paper in PDF format. The map from the paper can be seen below:

 

 

Janies, D., Hill A., Alexandrov, B., Habib, F., Pol, D. 2008. "Evolution of genomes, host shifts, and geographic spread of SARS-CoV and related coronaviruses", Cladistics. 24:111–130.

Below is a list of links to supplementary materials for the paper. Email Daniel Janies to request a copy of the paper in PDF format.

 

 

Janies, D., Hill, A., Guralnick, R., Habib, F., Waltari, E., Wheeler, W.C. 2007. Genomic Analysis and Geographic Visualization of the Spread of Avian Influenza (H5N1). Systematic Biology. 56:321-9.
Download the supramap supplementing the paper: aiTreesapril9.kmz (README)
Email Daniel Janies to request a copy of the paper in PDF format.

How to work with aiTreesapril9.kmz

After downloading and installing the latest version of Google Earth, the file .kmz will be associated with the Google Earth application, and simply double-clicking the file will open it properly.

When Google Earth loads the aiTrees.kmz file all the data from our file will be in the 'Places' frame on the left hand side of the screen. A folder 'aiTrees.kml' should be expanded with four sub-folders; 'Lys-627', 'Host Order', 'node calculation', and 'credits'. By default the 'credits' folder is selected for display. Clicking the radio button beside either of the other folders will load its contents.

If you click on the radio button beside "Host Order" two legends will load on the screen as well as the tree. At the top of the screen will be a timeline slider bar: by moving it forward in time you will see the geographic expansion of the phylogenetic tree. Within the "Tree" sub-folder of "Host Order" you will find each isolate and Hypothetical Taxonomic Unit (HTU) from our phylogenetic hypothesis. By double clicking on each isolate or HTU icon you will be presented with a pop-up window of diagnositic mutations for that clade.

If you click the radio button beside 'Lys-627', two legends will load on the screen as well as the tree. At the top of the screen will be a time slider, by moving slider forward in time you will see the geographic expansion of the phylogenetic tree. Within the 'Tree' sub-folder of 'Lys-627' you will find each isolate and Hypothetical Taxonomic Unit (HTU) from our phylogenetic hypothesis.

In any view, by double clicking on an isolate of interest or using the zoom tool you can focus on certain geographic areas. There are many more functions so take your time to explore the tree and don't hesitate to ask us questions.