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Functional characterization of spectral tuning mechanisms in the great bowerbird short-wavelength sensitive visual pigment (SWS1), and the origins of UV/violet vision in passerines and parrots

Ilke van Hazel1, Amir Sabouhanian1, Lainy Day2, John A Endler3 and Belinda SW Chang145*

Author Affiliations

1 Department of Ecology & Evolutionary, Biology University of Toronto, Toronto, Canada

2 Department of Biology, University of Mississippi, Oxford, Mississippi, USA

3 Centre for Integrative Ecology, Deakin University, Melbourne, Australia

4 Department of Cell & Systems Biology, University of Toronto, Toronto, Canada

5 Centre for the Analysis of Genomes and Evolution, University of Toronto, Toronto, Canada

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BMC Evolutionary Biology 2013, 13:250  doi:10.1186/1471-2148-13-250

Published: 13 November 2013

Additional files

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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