Data from: A molecular genetic time scale demonstrates Cretaceous origins and multiple diversification rate shifts within the order Galliformes (Aves)
Data files
Jul 07, 2015 version files 9.19 MB
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README_for_Stein et al 2015 - BEAST xml file for taxon-complete analyses.pdf
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README_for_Stein et al. 2015 - BEAST xml file for taxon set with molecular data.pdf
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Stein et al 2015 - BEAST xml file for taxon-complete analyses.xml
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Stein et al. 2015 - BEAST xml file for simulation of the calibrated tree prior on the MCC tree from analysis of the taxon set with molecular data.xml
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Stein et al. 2015 - BEAST xml file for taxon set with molecular data.xml
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Stein et al. 2015 Fig. 1.nex
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Stein et al. 2015 Fig. 1.tre
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Abstract
The phylogeny of Galliformes (landfowl) has been studied extensively; however, the associated chronologies have been criticized recently due to misplaced or misidentified fossil calibrations. As a consequence, it is unclear whether any crown-group lineages arose in the Cretaceous and survived the Cretaceous–Paleogene (K–Pg; 65.5 Ma) mass extinction. Using Bayesian phylogenetic inference on an alignment spanning 14,539 bp of mitochondrial and nuclear DNA sequence data, four fossil calibrations, and a combination of uncorrelated lognormally distributed relaxed-clock and strict-clock models, we inferred a time-calibrated molecular phylogeny for 225 of the 291 extant Galliform taxa. These analyses suggest that crown Galliformes diversified in the Cretaceous and that three-stem lineages survived the K–Pg mass extinction. Ideally, characterizing the tempo and mode of diversification involves a taxonomically complete phylogenetic hypothesis. We used simple constraint structures to incorporate 66 data-deficient taxa and inferred the first taxon-complete phylogenetic hypothesis for the Galliformes. Diversification analyses conducted on 10,000 timetrees sampled from the posterior distribution of candidate trees show that the evolutionary history of the Galliformes is best explained by a rate-shift model including 1–3 clade-specific increases in diversification rate. We further show that the tempo and mode of diversification in the Galliformes conforms to a three-pulse model, with three-stem lineages arising in the Cretaceous and inter and intrafamilial diversification occurring after the K–Pg mass extinction, in the Paleocene–Eocene (65.5–33.9 Ma) or in association with the Eocene–Oligocene transition (33.9 Ma).
- Stein, R. Will; Brown, Joseph W.; Mooers, Arne Ø. (2015), A molecular genetic time scale demonstrates Cretaceous origins and multiple diversification rate shifts within the order Galliformes (Aves), Molecular Phylogenetics and Evolution, Article-journal, https://doi.org/10.1016/j.ympev.2015.06.005
