File S1. Pseudoreference of concatenated unique RAD-seq clusters, separated by a stretch of five Ns, pseudochromosomes 1–6. Zip-compressed fasta file format. Available on Dryad, doi:10.5061/dryad.060d2.
File S2. Pseudoreference of concatenated unique RAD-seq clusters, separated by a stretch of five Ns, pseudochromosomes 7–12. Zip-compressed fasta file format. Available on Dryad, doi:10.5061/dryad.060d2.
Table S5. RAD sequencing data set for 96 individuals from 10 populations of R. capensis from the Cape Floristic Region of South Africa. Available on Dryad, doi:10.5061/dryad.060d2.

Table S2. Proportions of variance explained and standard deviations of the top three principal components (PC) of					
19 Worldclim variables (BIO1-19) based on all pixels of the Cape Floristic Region of South Africa at a resolution of 30 					
arc seconds, including loadings of each PC. For better readability, loadings of -0.1 < x < 0.1 are not printed.					
					
	PC1	PC2	PC3		
Proportion of Variance	0.910	0.069	0.015		
Cumulative Proportion	0.910	0.978	0.994		
					
Loadings					
BIO1 = Annual Mean Temperature					
BIO2 = Mean Diurnal Range (Mean of monthly (max temp - min temp))					
BIO3 = Isothermality (BIO2/BIO7) (* 100)					
BIO4 = Temperature Seasonality (standard deviation *100)	0.972	0.215			
BIO5 = Max Temperature of Warmest Month					
BIO6 = Min Temperature of Coldest Month			-0.119		
BIO7 = Temperature Annual Range (BIO5-BIO6)					
BIO8 = Mean Temperature of Wettest Quarter			0.241		
BIO9 = Mean Temperature of Driest Quarter			-0.427		
BIO10 = Mean Temperature of Warmest Quarter					
BIO11 = Mean Temperature of Coldest Quarter					
BIO12 = Annual Precipitation	-0.201	0.811	0.264		
BIO13 = Precipitation of Wettest Month		0.122			
BIO14 = Precipitation of Driest Month					
BIO15 = Precipitation Seasonality (Coefficient of Variation)			-0.196		
BIO16 = Precipitation of Wettest Quarter		0.359	-0.274		
BIO17 = Precipitation of Driest Quarter			0.290		
BIO18 = Precipitation of Warmest Quarter			0.452		
BIO19 = Precipitation of Coldest Quarter		0.357	-0.483