Origin and diversification of the California flora: re-examining classic hypotheses with molecular phylogenies

This dataset is linked with the following publication: Lancaster, LT and Kay, KM. 2012. Origin and diversification of the California flora: re-examining classic hypotheses with molecular phylogenies. Evolution. doi: 10.1111/evo.12016. The study found that California's current biodiversity is primarily a result of low extinction rates, as opposed to elevated speciation or immigration rates. Five datasets are presented here.
1. "Genbank accession numbers.csv" provides the Genbank accession numbers of published ITS loci and Jepson II name changes for species used in the study.
2. "Nucleotide substitution models.csv" provides the nucleotide substitution models and calibration dates for each of the 16 clades under consideration.
3. "MCMC analyses.csv" provides a comparison of 1000 versus 10,000 generation MCMC analyses of BiSSE rates for the posterior set of 1000 trees per clade. A burnin of 1% was discarded from each run.
4. "Comparison of diversification models.csv" provides data from the comparison of diversification models for the CA native subclades, using the method of (Morlon et al. 2011).
5. "Comparison of rates within and beyond California.csv" provides data that compares speciation, extinction, net diversification, and migration rates within California versus those beyond California within each of the selected clades.