title: A molecular genetic time scale demonstrates Cretaceous origins and multiple diversification rate shifts within the order Galliformes (Aves).
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).
authors.affiliation: Department of Biological Sciences, Simon Fraser University, Burnaby, BC V5A 1S6, Canada. Electronic address: rwstein@sfu.ca.
authors.forename: R Will
authors.initials: RW
authors.lastname: Stein
authors.affiliation: Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI 48109, USA. Electronic address: josephwb@umich.edu.
authors.forename: Joseph W
authors.initials: JW
authors.lastname: Brown
authors.affiliation: Department of Biological Sciences, Simon Fraser University, Burnaby, BC V5A 1S6, Canada. Electronic address: amooers@sfu.ca.
authors.forename: Arne Ø
authors.initials: AØ
authors.lastname: Mooers
mesh_terms: D000818:Animals; D001499:Bayes Theorem; D002138:Calibration; D005580:Fossils; D046094:Galliformes / Q000235:genetics*; D010802:Phylogeny; D013997:Time Factors
keywords: Bayesian; Diversification analysis; Fossil calibration; Galliformes; Mass extinction; Phylogeny