Species identification
We used Sanger sequencing to identify C. anna from a set of 32
unknown nestlings and fledglings using 30 individuals of known species
identity for comparison. We removed 14 of the 62 ND2 sequences due to
low quality or short sequence length, including 10 samples of unknown
species. Within known samples, C. anna samples formed a
monophyletic group allowing us to reliably identify other C. annain our unknown samples (Fig. S1). Of the 22 remaining unknown
hummingbird samples, 18 were identified as C. anna (Fig. S1) and
nine of those had location data and were therefore used for whole genome
sequencing.