Additional file 1: Table S1.

Degenerate oligonucleotides for PCR (numbering according to bovine rhodopsin). Table S2. Species names & accession numbers for Landbird SWS1 data set used in ancestral reconstruction analysis. Table S3. Likelihood scores of codon models used for ancestral reconstruction. Table S4. Maximum likelihood ancestral reconstruction of ancestral passerine/parrot, and ancestral passerine SWS1 pigments, with posterior probabilities (numbering according to bovine rhodo). Figure S1. Alignment of SWS1 opsin gene, helix 2 from Landbirds used in ancestral reconstruction, highlighting sites 86, 90 & 93. Figure S2. Alignment of visual pigment sequences in C. nuchalis. Figure S3. Phylogenetic relationships of the C. nuchalis opsin genes with those of other vertebrates. Figure S4. Alternate Landbird topologies used to confirm ancestral sequence reconstruction [101-108].

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van Hazel et al. BMC Evolutionary Biology 2013 13:250   doi:10.1186/1471-2148-13-250