Open Access Highly Accessed Research article

Mitogenomic phylogenetic analyses of the Delphinidae with an emphasis on the Globicephalinae

Julia T Vilstrup1, Simon YW Ho2, Andrew D Foote1, Phillip A Morin3, Danielle Kreb4, Michael Krützen5, Guido J Parra67, Kelly M Robertson3, Renaud de Stephanis89, Philippe Verborgh8, Eske Willerslev1, Ludovic Orlando1 and M Thomas P Gilbert1*

Author Affiliations

1 Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen, Denmark

2 School of Biological Sciences, University of Sydney, Sydney NSW 2006, Australia

3 Southwest Fisheries Science Center, NOAA Fisheries, 3333 N. Torrey Pines Ct., La Jolla, CA, 92037 USA

4 Yayasan Konservasi RASI, Samarinda, Kalimantan Timur, Indonesia

5 Evolutionary Genetics Group, Anthropological Institute and Museum, University of Zurich, Winterthurerstr. 190, 8057 Zurich, Switzerland

6 School of Biological Sciences, Flinders University, Lincoln Marine Science Centre, GPO BOX 2100 Adelaide, SA 5001, Australia

7 South Australian Research and Development Institute (Aquatic Sciences), PO Box 120, Henley Beach, SA 5022, Australia

8 CIRCE, Conservation Information and Research on Cetaceans, C/Cabeza de Manzaneda 3, Algeciras-Pelayo, 11390 Cadiz, Spain

9 Departamento de Biologia de la Conservación, Estación Biologica de Donana, CSIC, C/Americo Vespucio S/N, Isla de la Cartuja, Sevilla, 41092, Spain

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BMC Evolutionary Biology 2011, 11:65  doi:10.1186/1471-2148-11-65

Published: 10 March 2011

Additional files

Additional file 1:

Table showing number of sites used for analysis post-partitioning of the 8 incomplete mitogenome sequences. The complete mitogenome was not sequenced for eight of our samples and therefore only partial mitogenomes were used in the analyses for these eight samples. The exact lengths of these sequences and the number of sites used in the analyses are given in this table.

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Additional file 2:

Bayes factor statistics of the tested partitioning schemes. Partitioning schemes tested were unpartitioned, biologically-informed partitioned and randomly partitioned. For the randomly partitioned data sets, the sizes of the four partitions were the same as those in the biologically-informed partitions.

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Additional file 3:

Table of primers used in this study. The amplicon of the three primer sets designed by Morin et al. 2010 were in some difficult cases split into two, and two new primer sets were designed to amplify shorter sequences. This table contains all primer sequences used to amplify the mitogenome of samples used in this study, including primer melting temperature and the position in the mitogenome of the amplicons the primer set amplifies.

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Additional file 4:

Nucleotide frequencies for concatenated protein-coding genes, rRNA genes, and control region. Nucleotide frequencies for concatenated genes and control region of each amplified mitogenome, including number of sites and means. Taxon names have in most cases been shortened to the first three letters of the genus name followed by the first three letters of the species name, and the sequences amplified in our lab is also followed by sample name.

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Additional file 5:

Fossil dates used for calibration of divergence times in BEAST. Dates used to calibrate divergence times in BEAST analysis including their reference. The divergence of Grampus griseus from the other Globicephalinae is not based on fossil evidence but on an estimate from Xiong et al.'s (2009) analyses.

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