Open Access Highly Accessed Research article

Evolutionary relationships of the old world fruit bats (Chiroptera, Pteropodidae): Another star phylogeny?

Francisca C Almeida123*, Norberto P Giannini14, Rob DeSalle2 and Nancy B Simmons1

Author Affiliations

1 American Museum of Natural History, Division of Vertebrate Zoology, Department of Mammalogy, Central Park West at 79th Street, New York, NY 10024, USA

2 American Museum of Natural History, Sackler Institute for Comparative Genomics, Central Park West at 79th Street, New York, NY 10024, USA

3 Universitat de Barcelona, Departament de Genètica, Diagonal 645, Barcelona, 08028, Spain

4 CONICET, Programa de Investigaciones de Biodiversidad Argentina, Universidad Nacional de Tucumán, Facultad de Ciencias Naturales e Instituto Miguel Lillo, Miguel Lillo 205, Tucumán, CP 4000, Argentina

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BMC Evolutionary Biology 2011, 11:281  doi:10.1186/1471-2148-11-281

Published: 30 September 2011

Additional files

Additional file 1:

Saturation plot of the combined dataset 1. Figure S1 represents a saturation plot of the combined dataset 1 (with the exclusion of taxa missing one or more loci) based on GTR distances.

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Additional file 2:

GC content. Table S1 shows GC content statistics per gene and codon position, across all taxa and within main pteropodid clades.

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Additional file 3:

ML gene trees. The file contains Figures S2 through S7 illustrating gene trees obtained by maximum likelihood with each individual gene partition analyzed here: RAG1, RAG2, vWF, BRCA1, 12S16S and Cytb.

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Additional file 4:

Trees obtained with the exclusion of 3rd codon positions of Cytbrd. Figure S8 illustrates the MP tree with Bremer decay values and Figure S9 illustrates the ML bootstrap tree.

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Additional file 5:

ML topologies obtained with different data partition schemes. Figure S9 illustrating resumed ML trees obtained with dataset 1 under alternative partition schemes as described in Table 4 (main text).

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Additional file 6:

Substitution models and parameters. Table S2 listing optimal substitution models and parameters for each partition under scheme 6.

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Additional file 7:

P values of tests for zero-length branches. Table S3 showing P values of the SH and the AU tests for zero-length branches based on the combined dataset 1 for each main pteropodid node labeled on Figure 2 (main text).

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Additional file 8:

Sequences used in this study. List of samples with Genbank accession numbers of sequences used in this study (Table S4).

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Additional file 9:

Areas and generic distributions used in the biogeography analysis. Table S5 lists area units and Table S6 the generic distribution in those areas as used in the biogeography analysis.

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