蘑菇传媒

Published Phylogenetic Analyses of Cetacea by Contributors to this Website, with Links to Download the Data Matrices Used in These Studies.

If using Windows, we suggest you right click on the text in blue and then select “Save Link As”. This will allow you to save the file on your desktop instead of having to copy the text into a blank file.

Montgomery, S.H., J.H. Geisler, M.R. McGowen, C. Fox, L. Marino, and J. Gatesy. 2013 (online early). The evolutionary history of cetacean brain and body size. Evolution. DOI: 10.1111/evo.12197.

Meredith, R.W., J. Gatesy, C.A. Emerling, V.M. York, and M.S. Springer. 2013. Rod monochromacy and the coevolution of cetacean retinal opsin. PLOS Genetics 9(4): e1003432. doi:10.1371/journal.pgen.1003432

A pdf of the paper and datafiles can be downloaded at the PLOS Genetics聽聽and the pdf聽聽as well.

Gatesy, J., J. H. Geisler, J. Chang, C. Buell, A. Berta, R. W. Meredith, M.S. Springer, and M.R. McGowen. 2013. A phylogenetic blueprint for a modern whale. Molecular Phylogenetics and Evolution 66(2): 479-506

Four data files associated with this paper are available for download: a revised supermatrix for the dataset published by Demere et al. (2008) in  format, supermatrix of Geisler et al. (2011) but with character names in , data file for relationships of extant and extinct artiodactyls in , and the latter file in  format. You can view the abstract for this paper and purchase a PDF of the entire paper .

Geisler, J.H., Godfrey, S.J., and O. Lambert. 2012. A new genus and species of late Miocene inioid (Cetacea, Odontoceti) from the Meherrin River, North Carolina, U.S.A. Journal of Vertebrate Paleontology 32(1):198-211.

Data matrix in  is available for download. 
A pdf of the paper can be purchased here on the webpage of the 

Meredith, R.W., J. Gatesy, J. Cheng, and M.S. Springer. 2011. Pseudogenization of the tooth gene enamelysin (MMP20) in the common ancestor of extant baleen whales. Proceedings of the Royal Society B 278:993-1002.

Two datasets in nexus format are available here:

1. exon 2 MMP20 
2. MMP20 CHR-2 SINE 

A PDF of this paper can be downloaded聽聽or from the Proceedings of the聽

Geisler, J.H., M. McGowen, G. Yang, and J. Gatesy.2011.A supermatrix analysis of genomic, morphological, and paleontological data from crown Cetacea.BMC Evolutionary Biology 11:112.

Data matrix in  and  formats are available here for download.

A pdf of this paper can be downloaded聽聽or from the聽

McGowen, M.R., S.H. Montgomery, C. Clark, and J. Gatesy. 2011 Phylogeny and adaptive evolution of the brain-development gene microcephalin (MCPH1) in cetaceans. BMC Evolutionary Biology 11:98.

A pdf of this paper can be downloaded from the聽

McGowen, M. 2011. Towards the resolution of an explosive radiation鈥擜 multilocus phylogeny of oceanic dolphins (Delphinidae). Molecular Phylogenetics and Evolution 60(3):345-357.

Data matrix in聽聽format (modified nexus format) is available here for download. You can view the abstract for this paper and purchase a pdf of the entire paper聽

McGowen, M., M. Spaulding, and J. Gatesy.2009.pergence date estimation and a comprehensive molecular tree of extant cetaceans. Molecular Phylogenetics and Evolution 53:891-906.

Data matrix in  format is available here for download.

You can view the abstract for this paper and purchase a pdf of the entire paper at the following link聽

Spaulding, M., M. O’Leary, and J. Gatesy.2009.Relationships of Cetacea (Artiodactyla) among mammals: Increased taxon sampling alters interpretations of key fossils and character transformations. PLoS One 4(9): e7062.doi:10.1371/journal.pone.0007062.

Data matrix in  format is available here for download.

A pdf of this paper can be downloaded聽聽or from the聽

Geisler, J.H., and J.M. Theodor. 2009. Brief Communications Arising: Hippo and Whale Phylogeny. Nature 458: E1-E4. doi:10.1038/nature07776.

Data file in聽聽format is available here for download. Also available is a separate聽 with all most parsimonious trees, a聽 with the optimum trees for implied weighting with k = 3, and a聽聽of the published appendix. Full text of the paper can be viewed聽

McGowen, M.R., C. Clark, and J. Gatesy. 2008 The vestigial olfactory receptor subgenome of odontocete whales: phylogenetic congruence between gene-tree reconciliation and supermatrix methods. Systematic Biology 57(4):574-590.

Data file in聽聽format with the alignment of olfactory receptor sequences is available here for download, as is the same data concatenated with mtdna and nuclear loci, also in聽聽format . You can view the abstract for this paper and purchase a PDF of the entire paper聽.

Dem茅r茅, T., M. McGowen, A. Berta, and J. Gatesy.2008.Morphological and molecular evidence for a stepwise evolutionary transition from teeth to baleen in mysticete whales.Systematic Biology 57:15-37.

顿补迟补听 of the dental genes sequenced for this study is available here for download as well as a nexus version of the聽聽, which includes morphological and molecular data. A pdf of the paper is available at no charge聽

Geisler, J.H., and M.C. McKenna. 2007. A new species of mesonychian mammal from the early Eocene of Mongolia and its phylogenetic relationships. Acta Palaeontologica Polonica 52(1): 189-212.

Morphological data  associated with this study is available here for download. A pdf of the paper is available at no charge 

Geisler, J.H., Sanders, A.E., and Z.-X. Luo. 2005. A new protocetid whale (Cetacea: Archaeoceti) from the late middle Eocene of North America. American Museum Novitates 3480: 1-65.

Morphological data  associated with this study is available for here download. A pdf of the paper can be downloaded and is available at no charge from 

Geisler, J.H., and A.E. Sanders. 2003. Morphological evidence for the phylogeny of Cetacea. Journal of Mammalian Evolution 10: 23-129.

Morphological data聽 associated with this study is available here for download. You can view the abstract for this paper and purchase a pdf of the entire paper聽

Geisler, J.H., and M.D. Uhen. 2003. Morphological support for a close relationship between hippo and whales. Journal of Vertebrate Paleontology 23(4): 991-996.

Morphological data  associated with this study is available here for download. You can purchase a pdf of the entire paper