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Open Access Highly Accessed Research article

Updating the evolutionary history of Carnivora (Mammalia): a new species-level supertree complete with divergence time estimates

Katrin Nyakatura1 and Olaf RP Bininda-Emonds2*

Author Affiliations

1 Institute for Systematic Zoology and Evolutionary Biology, Friedrich-Schiller-Universität Jena, Erbertstrasse 1, 07743 Jena, Germany

2 AG Systematics and Evolutionary Biology, IBU-Faculty V, Carl von Ossietzky Universität Oldenburg, Carl von Ossietzky Strasse 9-11, 26111 Oldenburg, Germany

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BMC Biology 2012, 10:12  doi:10.1186/1741-7007-10-12

Published: 27 February 2012

Additional files

Additional file 1:

Summary of all source data used to build the carnivore supertree. In the accompanying electronic file, a filled-in cell (x for literature sources including Wozencraft [14], GenBank accession number for the gene trees) indicates the data that were available for that species for that source tree. More information for the literature trees can be found in Additional file 4.

Format: XLSX Size: 99KB Download file

Open Data

Additional file 2:

Summary statistics for the nodes on the carnivore supertree. rQS values are for informative source trees only and the numbers of source trees that supported, contradicted or contained no information with respect to a given node on the supertree are listed.

Format: XLS Size: 60KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 3:

Estimates of carnivore phylogeny using different analytical methods and/or variations on the base data set. The text file contains all additional trees constructed from the literature source trees and/or gene trees or gene data and referenced to in Table 3. The trees can be viewed using Mesquite [97] or a tree viewer like TreeView X [131] or FigTree [132], among others.

Format: NEX Size: 37KB Download file

Open Data

Additional file 4:

Summary of literature source trees. Identities of the literature studies, including the exact data source and category into which the source tree was placed.

Format: PDF Size: 285KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 5:

The carnivore supertree with divergence time estimates. The text file contains four topologically identical versions of the carnivore supertree. The first three differ in their branch lengths and reflect the best estimates of the divergence times and the lower and upper 95% CIs on these estimates. The final tree combines these three sets of dates in a single FigTree-specific [132] format using node bars to display the CIs; it might need to be deleted when viewing the file in an application other than FigTree. Otherwise, the trees can be viewed using Mesquite [97] or a tree viewer like TreeView X [131].

Format: NEX Size: 55KB Download file

Open Data

Additional file 6:

Optimal models of evolution for the 74 gene data sets for the relDate analyses. Analyses used in conjunction with PhyML ([125,126]; nonclock analyses) and PAUP* (clock analyses). An asterisk behind the likelihood ratio test P value indicates that the data set did not evolve according to a strict molecular clock at the 0.05 level (corrected for multiple comparisons).

Format: PDF Size: 149KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data