2.9 Demographic history
We inferred demographic histories by applying the Pairwise sequentially
Markovian coalescent (PSMC) method (Li & Durbin, 2011). Short-insert
paired-end WGS reads of A. flavipes (two individuals), A.
arktos , A. argentus , and M. melanurus were mapped to a
repeat-masked S. harrisii genome. Putative X-linked scaffolds in
the S. harrisii assembly were excluded (see Supplemental
Methods). Maps were generated using the R package ‘ggmap’ (Kahle &
Wickham, 2013).