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evo12053-sup-0001-Appendix.doc697K

Appendix S1. GenBank numbers for sequences used in the phylogenetic analyses.

Appendix S2. Detailed methods for estimation of phylogeny and divergence times.

Appendix S3. Estimation of divergence dates using penalized likelihood and results of comparative analyses using the alternate topology and branch lengths.

Appendix S4. Information on climatic distributions of 138 phrynosomatid lizard species for annual precipitation (Bio12; in mm/year), including the number of georeferenced localities used to obtain climatic data (sample size) and the mean, minimum, maximum, and range of Bio12 values across localities for each species.

Appendix S5. Taxonomic decisions.

Appendix S6. Relationships between time and richness and log transformation.

Appendix S7. R commands for simulations used to test the time-for-speciation effect.

Appendix S8. Inferred transitions between climatic zones (annual precipitation in mm/year), based on the estimated patterns shown in Fig. 2.

Appendix S9. Data for 27 phrynosomatid clades used to examine relationship between precipitation and net diversification rates.

Appendix S10. Parameter estimates from the quantitative state speciation and extinction analysis (QuaSSE).

Appendix S11. The geographic area of each bin of annual precipitation (only up to 5000 mm/year; areas with higher rainfall have much smaller areas and are not inhabited by phrynosomatids).

evo12053-sup-0002-FigureS1.pdf18KFigure S1. Maximum likelihood phylogeny of phrynosomatid lizards based on a combined, partitioned analysis of eight nuclear genes and five mitochondrial genes.
evo12053-sup-0003-FigureS2.pdf16KFigure S2. Bayesian time-calibrated phylogeny of phrynosomatid lizards based on a combined, partitioned analysis of eight nuclear genes and five mitochondrial genes (from BEAST).
evo12053-sup-0004-FigureS3.pdf17KFigure S3. Time-calibrated phylogeny of 117 species of phrynosomatid lizards based on penalized likelihood analysis (with r8s) showing ancestral reconstructions for mean values of annual precipitation within species (using PGLS).

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